data_YVC
# 
_chem_comp.id                                    YVC 
_chem_comp.name                                  "7-[(1~{S})-1-[5-[(2-azanylethanoylamino)methyl]-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                               "C25 H27 F N4 O7 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                        546.568 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YVC 
_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        8PG8 
_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 
YVC C37  C1  C 0 1 N N N N N N -25.735 -11.483 13.769 -3.886  -1.308 -0.640 C37  YVC 1  
YVC C34  C2  C 0 1 N N N N N N -30.790 -12.371 17.470 -9.210  1.882  -2.189 C34  YVC 2  
YVC O33  O1  O 0 1 N N N N N N -30.856 -13.880 15.543 -9.182  0.936  -0.027 O33  YVC 3  
YVC N31  N1  N 0 1 N N N N N N -28.779 -13.244 16.426 -7.184  1.175  -0.960 N31  YVC 4  
YVC C28  C3  C 0 1 N N N N N N -25.525 -13.286 15.243 -4.281  -0.013 1.204  C28  YVC 5  
YVC C30  C4  C 0 1 N N N N N N -27.995 -14.021 15.460 -6.518  0.607  0.215  C30  YVC 6  
YVC C29  C5  C 0 1 N N N N N N -26.899 -13.095 14.906 -5.006  0.582  -0.018 C29  YVC 7  
YVC C15  C6  C 0 1 N N N N N N -19.705 -12.242 4.590  6.876   1.461  -0.555 C15  YVC 8  
YVC C01  C7  C 0 1 N N N N N N -22.591 -12.308 15.678 -3.411  -3.528 1.412  C01  YVC 9  
YVC C02  C8  C 0 1 N N S N N N -23.417 -11.982 14.469 -2.778  -2.135 1.438  C02  YVC 10 
YVC C03  C9  C 0 1 Y N N N N N -22.851 -12.827 13.307 -1.401  -2.198 0.829  C03  YVC 11 
YVC C04  C10 C 0 1 Y N N N N N -22.537 -12.136 12.127 -0.500  -1.155 1.032  C04  YVC 12 
YVC C06  C11 C 0 1 Y N N N N N -22.269 -10.613 10.596 0.603   0.728  1.615  C06  YVC 13 
YVC C07  C12 C 0 1 N N N N N N -22.456 -9.307  9.969  0.881   2.033  2.219  C07  YVC 14 
YVC C10  C13 C 0 1 Y N N N N N -21.808 -11.793 10.024 1.488   -0.007 0.846  C10  YVC 15 
YVC C11  C14 C 0 1 Y N N N N N -21.252 -11.955 8.641  2.872   0.370  0.485  C11  YVC 16 
YVC C12  C15 C 0 1 Y N N N N N -21.581 -13.044 7.860  3.848   0.489  1.476  C12  YVC 17 
YVC C13  C16 C 0 1 Y N N N N N -21.071 -13.130 6.561  5.137   0.841  1.134  C13  YVC 18 
YVC C14  C17 C 0 1 Y N N N N N -20.247 -12.136 6.030  5.465   1.077  -0.189 C14  YVC 19 
YVC C17  C18 C 0 1 N N N N N N -20.739 -9.730  3.814  9.469   0.653  -1.306 C17  YVC 20 
YVC C20  C19 C 0 1 Y N N N N N -19.926 -11.058 6.844  4.503   0.961  -1.179 C20  YVC 21 
YVC C22  C20 C 0 1 Y N N N N N -20.425 -10.977 8.126  3.209   0.604  -0.849 C22  YVC 22 
YVC C23  C21 C 0 1 Y N N N N N -21.980 -12.758 11.009 0.783   -1.235 0.460  C23  YVC 23 
YVC C24  C22 C 0 1 Y N N N N N -21.727 -14.144 11.053 1.139   -2.351 -0.301 C24  YVC 24 
YVC C25  C23 C 0 1 Y N N N N N -22.042 -14.851 12.219 0.239   -3.362 -0.487 C25  YVC 25 
YVC C26  C24 C 0 1 Y N N N N N -22.605 -14.195 13.321 -1.028  -3.289 0.076  C26  YVC 26 
YVC C32  C25 C 0 1 N N N N N N -30.222 -13.267 16.372 -8.526  1.297  -0.981 C32  YVC 27 
YVC F21  F1  F 0 1 N N N N N N -19.142 -10.000 6.447  4.830   1.193  -2.469 F21  YVC 28 
YVC N05  N2  N 0 1 Y N N N N N -22.669 -10.815 11.856 -0.584  0.032  1.720  N05  YVC 29 
YVC N27  N3  N 0 1 N N N N N N -24.823 -12.242 14.564 -3.611  -1.207 0.668  N27  YVC 30 
YVC N35  N4  N 0 1 N N N N N N -29.874 -12.322 18.618 -10.662 1.906  -1.965 N35  YVC 31 
YVC O08  O2  O 0 1 N N N N N N -22.311 -8.276  10.716 -0.067  2.653  2.951  O08  YVC 32 
YVC O09  O3  O 0 1 N N N N N N -23.008 -9.309  8.820  1.967   2.557  2.062  O09  YVC 33 
YVC O18  O4  O 0 1 N N N N N N -22.209 -12.022 3.612  7.957   -0.785 0.305  O18  YVC 34 
YVC O19  O5  O 0 1 N N N N N N -20.374 -11.683 2.004  7.310   -0.662 -2.056 O19  YVC 35 
YVC O36  O6  O 0 1 N N N N N N -27.032 -11.995 14.030 -4.672  -0.331 -1.104 O36  YVC 36 
YVC O38  O7  O 0 1 N N N N N N -25.457 -10.609 13.023 -3.456  -2.203 -1.340 O38  YVC 37 
YVC S16  S1  S 0 1 N N N N N N -20.841 -11.474 3.361  7.841   -0.036 -0.897 S16  YVC 38 
YVC H342 H1  H 0 0 N N N N N N -30.928 -11.354 17.073 -8.851  2.898  -2.355 H342 YVC 39 
YVC H341 H2  H 0 0 N N N N N N -31.761 -12.771 17.798 -8.988  1.271  -3.064 H341 YVC 40 
YVC H311 H3  H 0 0 N N N N N N -28.314 -12.698 17.123 -6.659  1.464  -1.723 H311 YVC 41 
YVC H1   H4  H 0 1 N N N N N N -25.177 -14.271 14.899 -3.549  0.694  1.596  H1   YVC 42 
YVC H281 H5  H 0 0 N N N N N N -25.380 -13.204 16.330 -4.997  -0.288 1.978  H281 YVC 43 
YVC H301 H6  H 0 0 N N N N N N -28.643 -14.368 14.642 -6.740  1.218  1.090  H301 YVC 44 
YVC H302 H7  H 0 0 N N N N N N -27.538 -14.889 15.958 -6.877  -0.409 0.380  H302 YVC 45 
YVC H2   H8  H 0 1 N N N N N N -27.022 -12.426 15.771 -4.636  1.585  -0.232 H2   YVC 46 
YVC H151 H9  H 0 0 N N N N N N -19.576 -13.305 4.337  6.861   2.095  -1.442 H151 YVC 47 
YVC H152 H10 H 0 0 N N N N N N -18.732 -11.732 4.539  7.330   2.006  0.273  H152 YVC 48 
YVC H013 H11 H 0 0 N N N N N N -22.956 -11.729 16.539 -2.792  -4.219 1.985  H013 YVC 49 
YVC H012 H12 H 0 0 N N N N N N -22.672 -13.383 15.899 -4.407  -3.483 1.853  H012 YVC 50 
YVC H011 H13 H 0 0 N N N N N N -21.539 -12.052 15.483 -3.484  -3.875 0.382  H011 YVC 51 
YVC H021 H14 H 0 0 N N N N N N -23.261 -10.922 14.220 -2.705  -1.788 2.468  H021 YVC 52 
YVC H121 H15 H 0 0 N N N N N N -22.224 -13.820 8.247  3.593   0.306  2.509  H121 YVC 53 
YVC H131 H16 H 0 0 N N N N N N -21.321 -13.987 5.953  5.892   0.933  1.901  H131 YVC 54 
YVC H171 H17 H 0 0 N N N N N N -21.098 -9.597  4.845  9.378   1.310  -2.171 H171 YVC 55 
YVC H172 H18 H 0 0 N N N N N N -19.694 -9.393  3.743  9.847   1.222  -0.457 H172 YVC 56 
YVC H173 H19 H 0 0 N N N N N N -21.363 -9.136  3.129  10.159  -0.158 -1.537 H173 YVC 57 
YVC H221 H20 H 0 0 N N N N N N -20.163 -10.129 8.742  2.459   0.513  -1.621 H221 YVC 58 
YVC H241 H21 H 0 0 N N N N N N -21.298 -14.651 10.202 2.124   -2.415 -0.741 H241 YVC 59 
YVC H251 H22 H 0 0 N N N N N N -21.849 -15.912 12.270 0.515   -4.224 -1.075 H251 YVC 60 
YVC H261 H23 H 0 0 N N N N N N -22.854 -14.766 14.203 -1.728  -4.097 -0.076 H261 YVC 61 
YVC H051 H24 H 0 0 N N N N N N -23.006 -10.115 12.486 -1.365  0.337  2.208  H051 YVC 62 
YVC H352 H25 H 0 0 N N N N N N -30.259 -11.732 19.328 -10.890 2.413  -1.123 H352 YVC 63 
YVC H3   H26 H 0 1 N N N N N N -29.748 -13.244 18.983 -11.144 2.294  -2.762 H3   YVC 64 
YVC H4   H28 H 0 1 N N N N N N -22.678 -7.515  10.281 0.209   3.508  3.309  H4   YVC 65 
# 
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 
YVC O19 S16  DOUB N N 1  
YVC S16 O18  DOUB N N 2  
YVC S16 C17  SING N N 3  
YVC S16 C15  SING N N 4  
YVC C15 C14  SING N N 5  
YVC C14 C13  DOUB Y N 6  
YVC C14 C20  SING Y N 7  
YVC F21 C20  SING N N 8  
YVC C13 C12  SING Y N 9  
YVC C20 C22  DOUB Y N 10 
YVC C12 C11  DOUB Y N 11 
YVC C22 C11  SING Y N 12 
YVC C11 C10  SING N N 13 
YVC O09 C07  DOUB N N 14 
YVC C07 C06  SING N N 15 
YVC C07 O08  SING N N 16 
YVC C10 C06  DOUB Y N 17 
YVC C10 C23  SING Y N 18 
YVC C06 N05  SING Y N 19 
YVC C23 C24  DOUB Y N 20 
YVC C23 C04  SING Y N 21 
YVC C24 C25  SING Y N 22 
YVC N05 C04  SING Y N 23 
YVC C04 C03  DOUB Y N 24 
YVC C25 C26  DOUB Y N 25 
YVC O38 C37  DOUB N N 26 
YVC C03 C26  SING Y N 27 
YVC C03 C02  SING N N 28 
YVC C37 O36  SING N N 29 
YVC C37 N27  SING N N 30 
YVC O36 C29  SING N N 31 
YVC C02 N27  SING N N 32 
YVC C02 C01  SING N N 33 
YVC N27 C28  SING N N 34 
YVC C29 C28  SING N N 35 
YVC C29 C30  SING N N 36 
YVC C30 N31  SING N N 37 
YVC O33 C32  DOUB N N 38 
YVC C32 N31  SING N N 39 
YVC C32 C34  SING N N 40 
YVC C34 N35  SING N N 41 
YVC C34 H342 SING N N 42 
YVC C34 H341 SING N N 43 
YVC N31 H311 SING N N 44 
YVC C28 H1   SING N N 45 
YVC C28 H281 SING N N 46 
YVC C30 H301 SING N N 47 
YVC C30 H302 SING N N 48 
YVC C29 H2   SING N N 49 
YVC C15 H151 SING N N 50 
YVC C15 H152 SING N N 51 
YVC C01 H013 SING N N 52 
YVC C01 H012 SING N N 53 
YVC C01 H011 SING N N 54 
YVC C02 H021 SING N N 55 
YVC C12 H121 SING N N 56 
YVC C13 H131 SING N N 57 
YVC C17 H171 SING N N 58 
YVC C17 H172 SING N N 59 
YVC C17 H173 SING N N 60 
YVC C22 H221 SING N N 61 
YVC C24 H241 SING N N 62 
YVC C25 H251 SING N N 63 
YVC C26 H261 SING N N 64 
YVC N05 H051 SING N N 65 
YVC N35 H352 SING N N 66 
YVC N35 H3   SING N N 67 
YVC O08 H4   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 
YVC InChI            InChI                1.06  "InChI=1S/C25H27FN4O7S/c1-13(30-11-16(37-25(30)34)10-28-20(31)9-27)17-4-3-5-18-21(23(24(32)33)29-22(17)18)14-6-7-15(19(26)8-14)12-38(2,35)36/h3-8,13,16,29H,9-12,27H2,1-2H3,(H,28,31)(H,32,33)/t13-,16-/m0/s1" 
YVC InChIKey         InChI                1.06  JYIGXYMZIQXLDD-BBRMVZONSA-N                                                                                                                                                                                    
YVC SMILES_CANONICAL CACTVS               3.385 "C[C@H](N1C[C@H](CNC(=O)CN)OC1=O)c2cccc3c2[nH]c(C(O)=O)c3c4ccc(C[S](C)(=O)=O)c(F)c4"                                                                                                                           
YVC SMILES           CACTVS               3.385 "C[CH](N1C[CH](CNC(=O)CN)OC1=O)c2cccc3c2[nH]c(C(O)=O)c3c4ccc(C[S](C)(=O)=O)c(F)c4"                                                                                                                             
YVC 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)CNC(=O)CN"                                                                                                                                
YVC SMILES           "OpenEye OEToolkits" 2.0.7 "CC(c1cccc2c1[nH]c(c2c3ccc(c(c3)F)CS(=O)(=O)C)C(=O)O)N4CC(OC4=O)CNC(=O)CN"                                                                                                                                     
# 
_pdbx_chem_comp_identifier.comp_id           YVC 
_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-azanylethanoylamino)methyl]-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 
YVC "Create component" 2023-06-21 PDBE 
YVC "Initial release"  2024-07-10 RCSB 
# 
