data_YSX
# 
_chem_comp.id                                    YSX 
_chem_comp.name                                  "7-[(1~{S})-1-[3-(3-azanylpropyl)-2,5-bis(oxidanylidene)imidazolidin-1-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                               "C25 H27 F N4 O6 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-20 
_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                        530.568 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YSX 
_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        8PG6 
_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 
YSX C10  C1  C 0 1 Y N N N N N -21.841 -11.758 9.960  0.931   -0.148 -0.404 C10  YSX 1  
YSX C11  C2  C 0 1 Y N N N N N -21.250 -11.923 8.584  2.344   -0.402 -0.048 C11  YSX 2  
YSX C12  C3  C 0 1 Y N N N N N -21.475 -13.057 7.828  3.226   -0.913 -1.000 C12  YSX 3  
YSX C13  C4  C 0 1 Y N N N N N -20.924 -13.167 6.566  4.544   -1.148 -0.660 C13  YSX 4  
YSX C15  C5  C 0 1 Y N N N N N -20.128 -12.159 6.038  4.990   -0.877 0.623  C15  YSX 5  
YSX C16  C6  C 0 1 N N N N N N -19.482 -12.323 4.678  6.429   -1.135 0.988  C16  YSX 6  
YSX C18  C7  C 0 1 N N N N N N -20.831 -9.926  3.669  9.073   -0.177 1.160  C18  YSX 7  
YSX C21  C8  C 0 1 Y N N N N N -19.874 -11.047 6.819  4.119   -0.370 1.571  C21  YSX 8  
YSX C22  C9  C 0 1 Y N N N N N -20.426 -10.915 8.077  2.802   -0.126 1.242  C22  YSX 9  
YSX C23  C10 C 0 1 Y N N N N N -21.892 -12.738 10.988 0.259   1.156  -0.457 C23  YSX 10 
YSX C24  C11 C 0 1 Y N N N N N -21.514 -14.095 11.081 0.677   2.465  -0.210 C24  YSX 11 
YSX C25  C12 C 0 1 Y N N N N N -21.783 -14.784 12.277 -0.207  3.498  -0.349 C25  YSX 12 
YSX C26  C13 C 0 1 Y N N N N N -22.380 -14.134 13.368 -1.519  3.256  -0.733 C26  YSX 13 
YSX C01  C14 C 0 1 N N N N N N -22.774 -12.296 15.818 -4.014  3.042  -1.853 C01  YSX 14 
YSX C02  C15 C 0 1 N N S N N N -23.400 -12.017 14.461 -3.380  1.725  -1.398 C02  YSX 15 
YSX C03  C16 C 0 1 Y N N N N N -22.744 -12.788 13.305 -1.953  1.973  -0.982 C03  YSX 16 
YSX C04  C17 C 0 1 Y N N N N N -22.486 -12.101 12.090 -1.070  0.904  -0.847 C04  YSX 17 
YSX C06  C18 C 0 1 Y N N N N N -22.379 -10.587 10.485 -0.017  -1.092 -0.760 C06  YSX 18 
YSX C07  C19 C 0 1 N N N N N N -22.644 -9.291  9.787  0.212   -2.537 -0.842 C07  YSX 19 
YSX C28  C20 C 0 1 N N N N N N -25.787 -11.465 13.704 -4.260  1.810  0.925  C28  YSX 20 
YSX C30  C21 C 0 1 N N N N N N -27.174 -11.992 13.859 -5.114  0.894  1.779  C30  YSX 21 
YSX C32  C22 C 0 1 N N N N N N -28.134 -14.073 15.077 -6.190  -1.434 1.213  C32  YSX 22 
YSX C33  C23 C 0 1 N N N N N N -29.240 -13.462 15.948 -7.656  -1.182 0.851  C33  YSX 23 
YSX C34  C24 C 0 1 N N N N N N -30.009 -14.547 16.704 -8.485  -2.423 1.189  C34  YSX 24 
YSX C36  C25 C 0 1 N N N N N N -25.633 -13.350 15.018 -4.783  0.017  -0.279 C36  YSX 25 
YSX F14  F1  F 0 1 N N N N N N -21.183 -14.284 5.827  5.400   -1.643 -1.581 F14  YSX 26 
YSX N05  N1  N 0 1 Y N N N N N -22.754 -10.807 11.744 -1.211  -0.453 -1.023 N05  YSX 27 
YSX N27  N2  N 0 1 N N N N N N -24.862 -12.269 14.431 -4.134  1.187  -0.263 N27  YSX 28 
YSX N31  N3  N 0 1 N N N N N N -27.039 -13.169 14.707 -5.397  -0.246 0.889  N31  YSX 29 
YSX N35  N4  N 0 1 N N N N N N -31.233 -14.007 17.287 -9.892  -2.181 0.842  N35  YSX 30 
YSX O08  O1  O 0 1 N N N N N N -23.023 -9.272  8.579  1.309   -2.995 -0.587 O08  YSX 31 
YSX O09  O2  O 0 1 N N N N N N -22.586 -8.201  10.465 -0.796  -3.359 -1.202 O09  YSX 32 
YSX O19  O3  O 0 1 N N N N N N -21.761 -12.375 3.315  7.418   0.590  -0.743 O19  YSX 33 
YSX O20  O4  O 0 1 N N N N N N -19.863 -11.795 2.054  6.982   1.384  1.535  O20  YSX 34 
YSX O29  O5  O 0 1 N N N N N N -25.463 -10.486 13.066 -3.792  2.882  1.244  O29  YSX 35 
YSX O37  O6  O 0 1 N N N N N N -25.157 -14.238 15.637 -4.815  -0.725 -1.241 O37  YSX 36 
YSX S17  S1  S 0 1 N N N N N N -20.498 -11.672 3.341  7.413   0.352  0.658  S17  YSX 37 
YSX H121 H1  H 0 0 N N N N N N -22.082 -13.858 8.224  2.878   -1.125 -2.001 H121 YSX 38 
YSX H161 H2  H 0 0 N N N N N N -19.308 -13.394 4.498  6.496   -1.387 2.047  H161 YSX 39 
YSX H162 H3  H 0 0 N N N N N N -18.519 -11.791 4.679  6.812   -1.964 0.393  H162 YSX 40 
YSX H183 H4  H 0 0 N N N N N N -21.316 -9.823  4.651  9.777   0.641  1.009  H183 YSX 41 
YSX H181 H5  H 0 0 N N N N N N -19.884 -9.366  3.667  9.062   -0.458 2.214  H181 YSX 42 
YSX H182 H6  H 0 0 N N N N N N -21.495 -9.526  2.888  9.379   -1.034 0.559  H182 YSX 43 
YSX H211 H7  H 0 0 N N N N N N -19.232 -10.267 6.438  4.472   -0.160 2.570  H211 YSX 44 
YSX H221 H8  H 0 0 N N N N N N -20.222 -10.035 8.668  2.123   0.270  1.983  H221 YSX 45 
YSX H241 H9  H 0 0 N N N N N N -21.030 -14.592 10.253 1.696   2.661  0.090  H241 YSX 46 
YSX H251 H10 H 0 0 N N N N N N -21.526 -15.830 12.357 0.117   4.510  -0.158 H251 YSX 47 
YSX H261 H11 H 0 0 N N N N N N -22.562 -14.688 14.277 -2.207  4.082  -0.838 H261 YSX 48 
YSX H013 H12 H 0 0 N N N N N N -23.295 -11.711 16.590 -3.994  3.758  -1.032 H013 YSX 49 
YSX H011 H13 H 0 0 N N N N N N -22.862 -13.368 16.049 -3.453  3.442  -2.698 H011 YSX 50 
YSX H012 H14 H 0 0 N N N N N N -21.712 -12.011 15.797 -5.046  2.863  -2.155 H012 YSX 51 
YSX H021 H15 H 0 0 N N N N N N -23.248 -10.947 14.253 -3.400  1.010  -2.220 H021 YSX 52 
YSX H301 H16 H 0 0 N N N N N N -27.821 -11.242 14.338 -4.562  0.565  2.659  H301 YSX 53 
YSX H302 H17 H 0 0 N N N N N N -27.594 -12.267 12.880 -6.039  1.392  2.070  H302 YSX 54 
YSX H321 H18 H 0 0 N N N N N N -28.598 -14.438 14.149 -6.110  -1.645 2.279  H321 YSX 55 
YSX H322 H19 H 0 0 N N N N N N -27.700 -14.921 15.628 -5.817  -2.286 0.645  H322 YSX 56 
YSX H331 H20 H 0 0 N N N N N N -28.785 -12.772 16.674 -8.029  -0.330 1.419  H331 YSX 57 
YSX H332 H21 H 0 0 N N N N N N -29.939 -12.908 15.304 -7.736  -0.971 -0.215 H332 YSX 58 
YSX H342 H22 H 0 0 N N N N N N -30.269 -15.357 16.006 -8.112  -3.275 0.621  H342 YSX 59 
YSX H341 H23 H 0 0 N N N N N N -29.373 -14.946 17.508 -8.405  -2.634 2.256  H341 YSX 60 
YSX H051 H24 H 0 0 N N N N N N -23.170 -10.126 12.347 -2.030  -0.896 -1.293 H051 YSX 61 
YSX H352 H25 H 0 0 N N N N N N -31.718 -14.732 17.775 -9.985  -1.920 -0.128 H352 YSX 62 
YSX H1   H26 H 0 1 N N N N N N -31.002 -13.272 17.925 -10.460 -2.986 1.056  H1   YSX 63 
YSX H2   H28 H 0 1 N N N N N N -22.858 -7.473  9.919  -0.550  -4.294 -1.229 H2   YSX 64 
# 
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 
YSX O20 S17  DOUB N N 1  
YSX O19 S17  DOUB N N 2  
YSX S17 C18  SING N N 3  
YSX S17 C16  SING N N 4  
YSX C16 C15  SING N N 5  
YSX F14 C13  SING N N 6  
YSX C15 C13  DOUB Y N 7  
YSX C15 C21  SING Y N 8  
YSX C13 C12  SING Y N 9  
YSX C21 C22  DOUB Y N 10 
YSX C12 C11  DOUB Y N 11 
YSX C22 C11  SING Y N 12 
YSX O08 C07  DOUB N N 13 
YSX C11 C10  SING N N 14 
YSX C07 O09  SING N N 15 
YSX C07 C06  SING N N 16 
YSX C10 C06  DOUB Y N 17 
YSX C10 C23  SING Y N 18 
YSX C06 N05  SING Y N 19 
YSX C23 C24  DOUB Y N 20 
YSX C23 C04  SING Y N 21 
YSX C24 C25  SING Y N 22 
YSX N05 C04  SING Y N 23 
YSX C04 C03  DOUB Y N 24 
YSX C25 C26  DOUB Y N 25 
YSX O29 C28  DOUB N N 26 
YSX C03 C26  SING Y N 27 
YSX C03 C02  SING N N 28 
YSX C28 C30  SING N N 29 
YSX C28 N27  SING N N 30 
YSX C30 N31  SING N N 31 
YSX N27 C02  SING N N 32 
YSX N27 C36  SING N N 33 
YSX C02 C01  SING N N 34 
YSX N31 C36  SING N N 35 
YSX N31 C32  SING N N 36 
YSX C36 O37  DOUB N N 37 
YSX C32 C33  SING N N 38 
YSX C33 C34  SING N N 39 
YSX C34 N35  SING N N 40 
YSX C12 H121 SING N N 41 
YSX C16 H161 SING N N 42 
YSX C16 H162 SING N N 43 
YSX C18 H183 SING N N 44 
YSX C18 H181 SING N N 45 
YSX C18 H182 SING N N 46 
YSX C21 H211 SING N N 47 
YSX C22 H221 SING N N 48 
YSX C24 H241 SING N N 49 
YSX C25 H251 SING N N 50 
YSX C26 H261 SING N N 51 
YSX C01 H013 SING N N 52 
YSX C01 H011 SING N N 53 
YSX C01 H012 SING N N 54 
YSX C02 H021 SING N N 55 
YSX C30 H301 SING N N 56 
YSX C30 H302 SING N N 57 
YSX C32 H321 SING N N 58 
YSX C32 H322 SING N N 59 
YSX C33 H331 SING N N 60 
YSX C33 H332 SING N N 61 
YSX C34 H342 SING N N 62 
YSX C34 H341 SING N N 63 
YSX N05 H051 SING N N 64 
YSX N35 H352 SING N N 65 
YSX N35 H1   SING N N 66 
YSX O09 H2   SING N N 67 
# 
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 
YSX InChI            InChI                1.06  "InChI=1S/C25H27FN4O6S/c1-14(30-20(31)12-29(25(30)34)10-4-9-27)17-5-3-6-18-21(23(24(32)33)28-22(17)18)15-7-8-16(19(26)11-15)13-37(2,35)36/h3,5-8,11,14,28H,4,9-10,12-13,27H2,1-2H3,(H,32,33)/t14-/m0/s1" 
YSX InChIKey         InChI                1.06  XOMHMYMNGWYVNR-AWEZNQCLSA-N                                                                                                                                                                              
YSX SMILES_CANONICAL CACTVS               3.385 "C[C@H](N1C(=O)CN(CCCN)C1=O)c2cccc3c2[nH]c(C(O)=O)c3c4ccc(C[S](C)(=O)=O)c(F)c4"                                                                                                                          
YSX SMILES           CACTVS               3.385 "C[CH](N1C(=O)CN(CCCN)C1=O)c2cccc3c2[nH]c(C(O)=O)c3c4ccc(C[S](C)(=O)=O)c(F)c4"                                                                                                                           
YSX SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H](c1cccc2c1[nH]c(c2c3ccc(c(c3)F)CS(=O)(=O)C)C(=O)O)N4C(=O)CN(C4=O)CCCN"                                                                                                                           
YSX SMILES           "OpenEye OEToolkits" 2.0.7 "CC(c1cccc2c1[nH]c(c2c3ccc(c(c3)F)CS(=O)(=O)C)C(=O)O)N4C(=O)CN(C4=O)CCCN"                                                                                                                                
# 
_pdbx_chem_comp_identifier.comp_id           YSX 
_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-[3-(3-azanylpropyl)-2,5-bis(oxidanylidene)imidazolidin-1-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 
YSX "Create component" 2023-06-20 PDBE 
YSX "Initial release"  2024-07-10 RCSB 
# 
