data_YVH
# 
_chem_comp.id                                    YVH 
_chem_comp.name                                  "7-[(1~{S})-1-(2-carbamimidoyl-6-oxidanylidene-5-oxa-2,7-diazaspiro[3.4]octan-7-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 H26 F N5 O6 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-21 
_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                        543.567 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YVH 
_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        8PGK 
_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 
YVH C15  C1  C 0 1 Y N N N N N -20.143 -12.876 -26.989 1.747  -2.349 -0.915 C15  YVH 1  
YVH C13  C2  C 0 1 N N N N N N -22.939 -11.514 -26.674 4.095  -1.999 0.955  C13  YVH 2  
YVH C11  C3  C 0 1 N N N N N N -25.341 -12.849 -24.677 5.170  1.292  1.478  C11  YVH 3  
YVH N10  N1  N 0 1 N N N N N N -27.826 -14.158 -23.754 6.524  3.946  0.625  N10  YVH 4  
YVH C01  C4  C 0 1 N N N N N N -20.037 -12.480 -24.484 3.743  -3.651 -1.599 C01  YVH 5  
YVH C02  C5  C 0 1 N N S N N N -20.736 -12.078 -25.777 3.184  -2.247 -1.357 C02  YVH 6  
YVH C04  C6  C 0 1 N N N N N N -22.842 -13.467 -25.281 4.751  -0.345 -0.488 C04  YVH 7  
YVH C05  C7  C 0 1 N N N N N N -24.277 -13.174 -25.699 5.355  -0.112 0.900  C05  YVH 8  
YVH C06  C8  C 0 1 N N N N N N -25.134 -14.227 -26.330 6.861  0.148  0.935  C06  YVH 9  
YVH C08  C9  C 0 1 N N N N N N -27.291 -14.649 -24.819 7.153  2.728  0.516  C08  YVH 10 
YVH C16  C10 C 0 1 Y N N N N N -19.876 -12.222 -28.145 0.922  -1.226 -0.957 C16  YVH 11 
YVH C18  C11 C 0 1 Y N N N N N -19.652 -10.661 -29.754 -0.022 0.812  -1.192 C18  YVH 12 
YVH C19  C12 C 0 1 N N N N N N -19.892 -9.306  -30.365 -0.171 2.236  -1.503 C19  YVH 13 
YVH C22  C13 C 0 1 Y N N N N N -19.212 -11.808 -30.306 -1.019 -0.014 -0.703 C22  YVH 14 
YVH C23  C14 C 0 1 Y N N N N N -18.638 -12.021 -31.699 -2.416 0.369  -0.400 C23  YVH 15 
YVH C24  C15 C 0 1 Y N N N N N -18.919 -13.103 -32.404 -3.269 0.776  -1.426 C24  YVH 16 
YVH C25  C16 C 0 1 Y N N N N N -18.291 -13.194 -33.806 -4.571 1.131  -1.138 C25  YVH 17 
YVH C26  C17 C 0 1 Y N N N N N -17.494 -12.234 -34.293 -5.032 1.086  0.166  C26  YVH 18 
YVH C27  C18 C 0 1 N N N N N N -16.868 -12.297 -35.710 -6.455 1.475  0.473  C27  YVH 19 
YVH C29  C19 C 0 1 N N N N N N -18.129 -9.794  -36.475 -9.149 0.700  0.763  C29  YVH 20 
YVH C32  C20 C 0 1 Y N N N N N -17.204 -11.039 -33.428 -4.190 0.683  1.190  C32  YVH 21 
YVH C34  C21 C 0 1 Y N N N N N -17.720 -10.946 -32.221 -2.886 0.319  0.913  C34  YVH 22 
YVH C35  C22 C 0 1 Y N N N N N -19.290 -12.887 -29.330 -0.418 -1.343 -0.546 C35  YVH 23 
YVH C36  C23 C 0 1 Y N N N N N -18.998 -14.242 -29.272 -0.907 -2.574 -0.102 C36  YVH 24 
YVH C37  C24 C 0 1 Y N N N N N -19.303 -14.926 -28.071 -0.080 -3.661 -0.068 C37  YVH 25 
YVH C38  C25 C 0 1 Y N N N N N -19.882 -14.230 -26.955 1.243  -3.552 -0.474 C38  YVH 26 
YVH F33  F1  F 0 1 N N N N N N -16.412 -10.039 -33.870 -4.646 0.641  2.461  F33  YVH 27 
YVH N03  N2  N 0 1 N N N N N N -22.136 -12.297 -25.792 3.969  -1.582 -0.314 N03  YVH 28 
YVH N07  N3  N 0 1 N N N N N N -26.123 -13.995 -25.278 6.504  1.582  0.910  N07  YVH 29 
YVH N09  N4  N 0 1 N N N N N N -27.681 -15.640 -25.503 8.363  2.660  0.038  N09  YVH 30 
YVH N17  N5  N 0 1 Y N N N N N -20.011 -10.903 -28.508 1.137  0.076  -1.341 N17  YVH 31 
YVH O12  O1  O 0 1 N N N N N N -24.244 -12.051 -26.624 4.873  -1.208 1.710  O12  YVH 32 
YVH O14  O2  O 0 1 N N N N N N -22.623 -10.637 -27.352 3.550  -2.997 1.382  O14  YVH 33 
YVH O20  O3  O 0 1 N N N N N N -19.779 -8.353  -29.634 0.879  2.937  -1.976 O20  YVH 34 
YVH O21  O4  O 0 1 N N N N N N -20.379 -9.320  -31.491 -1.243 2.786  -1.334 O21  YVH 35 
YVH O30  O5  O 0 1 N N N N N N -19.314 -12.174 -36.766 -7.535 -0.440 -0.983 O30  YVH 36 
YVH O31  O6  O 0 1 N N N N N N -17.370 -11.631 -38.195 -7.147 -0.897 1.394  O31  YVH 37 
YVH S28  S1  S 0 1 N N N N N N -18.017 -11.531 -36.902 -7.519 0.010  0.365  S28  YVH 38 
YVH H112 H1  H 0 0 N N N N N N -25.038 -12.993 -23.630 4.362  1.856  1.013  H112 YVH 39 
YVH H111 H2  H 0 0 N N N N N N -25.807 -11.859 -24.791 5.138  1.319  2.567  H111 YVH 40 
YVH H101 H3  H 0 0 N N N N N N -27.413 -13.364 -23.308 5.623  3.997  0.980  H101 YVH 41 
YVH H1   H4  H 0 1 N N N N N N -28.654 -14.571 -23.374 6.982  4.755  0.347  H1   YVH 42 
YVH H013 H5  H 0 0 N N N N N N -20.464 -11.912 -23.644 3.159  -4.146 -2.374 H013 YVH 43 
YVH H012 H6  H 0 0 N N N N N N -20.180 -13.556 -24.309 4.783  -3.578 -1.918 H012 YVH 44 
YVH H011 H7  H 0 0 N N N N N N -18.962 -12.262 -24.565 3.687  -4.229 -0.676 H011 YVH 45 
YVH H021 H8  H 0 0 N N N N N N -20.533 -11.012 -25.954 3.241  -1.670 -2.279 H021 YVH 46 
YVH H042 H9  H 0 0 N N N N N N -22.471 -14.393 -25.745 4.102  0.484  -0.769 H042 YVH 47 
YVH H041 H10 H 0 0 N N N N N N -22.751 -13.543 -24.187 5.537  -0.484 -1.231 H041 YVH 48 
YVH H061 H11 H 0 0 N N N N N N -25.483 -13.983 -27.344 7.341  -0.170 1.860  H061 YVH 49 
YVH H062 H12 H 0 0 N N N N N N -24.693 -15.235 -26.326 7.387  -0.190 0.042  H062 YVH 50 
YVH H241 H13 H 0 0 N N N N N N -19.557 -13.883 -32.016 -2.912 0.813  -2.444 H241 YVH 51 
YVH H251 H14 H 0 0 N N N N N N -18.500 -14.060 -34.417 -5.232 1.446  -1.932 H251 YVH 52 
YVH H272 H15 H 0 0 N N N N N N -16.692 -13.346 -35.989 -6.509 1.890  1.479  H272 YVH 53 
YVH H271 H16 H 0 0 N N N N N N -15.913 -11.751 -35.716 -6.791 2.222  -0.247 H271 YVH 54 
YVH H292 H17 H 0 0 N N N N N N -18.617 -9.688  -35.495 -9.123 1.138  1.761  H292 YVH 55 
YVH H293 H18 H 0 0 N N N N N N -17.118 -9.362  -36.430 -9.405 1.470  0.035  H293 YVH 56 
YVH H291 H19 H 0 0 N N N N N N -18.720 -9.266  -37.238 -9.896 -0.092 0.733  H291 YVH 57 
YVH H341 H20 H 0 0 N N N N N N -17.484 -10.094 -31.601 -2.230 0.005  1.712  H341 YVH 58 
YVH H361 H21 H 0 0 N N N N N N -18.554 -14.756 -30.112 -1.936 -2.666 0.215  H361 YVH 59 
YVH H371 H22 H 0 0 N N N N N N -19.098 -15.983 -27.992 -0.459 -4.612 0.275  H371 YVH 60 
YVH H381 H23 H 0 0 N N N N N N -20.121 -14.785 -26.060 1.884  -4.421 -0.446 H381 YVH 61 
YVH H092 H24 H 0 0 N N N N N N -28.509 -16.054 -25.125 8.821  3.469  -0.240 H092 YVH 62 
YVH H171 H25 H 0 0 N N N N N N -20.349 -10.195 -27.887 1.980  0.428  -1.668 H171 YVH 63 
YVH H2   H26 H 0 1 N N N N N N -20.131 -7.582  -30.062 0.684  3.868  -2.151 H2   YVH 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 
YVH O31 S28  DOUB N N 1  
YVH S28 O30  DOUB N N 2  
YVH S28 C29  SING N N 3  
YVH S28 C27  SING N N 4  
YVH C27 C26  SING N N 5  
YVH C26 C25  DOUB Y N 6  
YVH C26 C32  SING Y N 7  
YVH F33 C32  SING N N 8  
YVH C25 C24  SING Y N 9  
YVH C32 C34  DOUB Y N 10 
YVH C24 C23  DOUB Y N 11 
YVH C34 C23  SING Y N 12 
YVH C23 C22  SING N N 13 
YVH O21 C19  DOUB N N 14 
YVH C19 C18  SING N N 15 
YVH C19 O20  SING N N 16 
YVH C22 C18  DOUB Y N 17 
YVH C22 C35  SING Y N 18 
YVH C18 N17  SING Y N 19 
YVH C35 C36  DOUB Y N 20 
YVH C35 C16  SING Y N 21 
YVH C36 C37  SING Y N 22 
YVH N17 C16  SING Y N 23 
YVH C16 C15  DOUB Y N 24 
YVH C37 C38  DOUB Y N 25 
YVH O14 C13  DOUB N N 26 
YVH C15 C38  SING Y N 27 
YVH C15 C02  SING N N 28 
YVH C13 O12  SING N N 29 
YVH C13 N03  SING N N 30 
YVH O12 C05  SING N N 31 
YVH C06 C05  SING N N 32 
YVH C06 N07  SING N N 33 
YVH N03 C02  SING N N 34 
YVH N03 C04  SING N N 35 
YVH C02 C01  SING N N 36 
YVH C05 C04  SING N N 37 
YVH C05 C11  SING N N 38 
YVH N09 C08  DOUB N N 39 
YVH N07 C08  SING N N 40 
YVH N07 C11  SING N N 41 
YVH C08 N10  SING N N 42 
YVH C11 H112 SING N N 43 
YVH C11 H111 SING N N 44 
YVH N10 H101 SING N N 45 
YVH N10 H1   SING N N 46 
YVH C01 H013 SING N N 47 
YVH C01 H012 SING N N 48 
YVH C01 H011 SING N N 49 
YVH C02 H021 SING N N 50 
YVH C04 H042 SING N N 51 
YVH C04 H041 SING N N 52 
YVH C06 H061 SING N N 53 
YVH C06 H062 SING N N 54 
YVH C24 H241 SING N N 55 
YVH C25 H251 SING N N 56 
YVH C27 H272 SING N N 57 
YVH C27 H271 SING N N 58 
YVH C29 H292 SING N N 59 
YVH C29 H293 SING N N 60 
YVH C29 H291 SING N N 61 
YVH C34 H341 SING N N 62 
YVH C36 H361 SING N N 63 
YVH C37 H371 SING N N 64 
YVH C38 H381 SING N N 65 
YVH N09 H092 SING N N 66 
YVH N17 H171 SING N N 67 
YVH O20 H2   SING N N 68 
# 
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 
YVH InChI            InChI                1.06  "InChI=1S/C25H26FN5O6S/c1-13(31-12-25(37-24(31)34)10-30(11-25)23(27)28)16-4-3-5-17-19(21(22(32)33)29-20(16)17)14-6-7-15(18(26)8-14)9-38(2,35)36/h3-8,13,29H,9-12H2,1-2H3,(H3,27,28)(H,32,33)/t13-/m0/s1" 
YVH InChIKey         InChI                1.06  OACISRKPCCFFSQ-ZDUSSCGKSA-N                                                                                                                                                                              
YVH SMILES_CANONICAL CACTVS               3.385 "C[C@H](N1CC2(CN(C2)C(N)=N)OC1=O)c3cccc4c3[nH]c(C(O)=O)c4c5ccc(C[S](C)(=O)=O)c(F)c5"                                                                                                                     
YVH SMILES           CACTVS               3.385 "C[CH](N1CC2(CN(C2)C(N)=N)OC1=O)c3cccc4c3[nH]c(C(O)=O)c4c5ccc(C[S](C)(=O)=O)c(F)c5"                                                                                                                      
YVH SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(/N)\N1CC2(C1)CN(C(=O)O2)[C@@H](C)c3cccc4c3[nH]c(c4c5ccc(c(c5)F)CS(=O)(=O)C)C(=O)O"                                                                                                              
YVH SMILES           "OpenEye OEToolkits" 2.0.7 "CC(c1cccc2c1[nH]c(c2c3ccc(c(c3)F)CS(=O)(=O)C)C(=O)O)N4CC5(CN(C5)C(=N)N)OC4=O"                                                                                                                           
# 
_pdbx_chem_comp_identifier.comp_id           YVH 
_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-carbamimidoyl-6-oxidanylidene-5-oxa-2,7-diazaspiro[3.4]octan-7-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 
YVH "Create component" 2023-06-21 PDBE 
YVH "Initial release"  2024-07-10 RCSB 
# 
