data_YV8
# 
_chem_comp.id                                    YV8 
_chem_comp.name                                  "7-[(1~{S})-1-[(5~{S})-5-(3-azanylpropyl)-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 H28 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                     2023-06-21 
_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                        517.570 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YV8 
_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        8PG9 
_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 
YV8 C10  C1  C 0 1 Y N N N N N -21.868 -11.803 9.907  -0.919 0.766  0.415  C10  YV8 1  
YV8 C01  C2  C 0 1 N N N N N N -22.611 -12.389 15.679 4.597  3.255  0.743  C01  YV8 2  
YV8 C02  C3  C 0 1 N N S N N N -23.337 -11.996 14.402 3.683  2.043  0.934  C02  YV8 3  
YV8 C03  C4  C 0 1 Y N N N N N -22.808 -12.807 13.219 2.364  2.296  0.251  C03  YV8 4  
YV8 C04  C5  C 0 1 Y N N N N N -22.534 -12.139 12.013 1.259  1.501  0.549  C04  YV8 5  
YV8 C06  C6  C 0 1 Y N N N N N -22.282 -10.625 10.499 -0.227 -0.010 1.328  C06  YV8 6  
YV8 C07  C7  C 0 1 N N N N N N -22.475 -9.283  9.878  -0.788 -1.127 2.093  C07  YV8 7  
YV8 C11  C8  C 0 1 Y N N N N N -21.322 -11.962 8.508  -2.343 0.631  0.037  C11  YV8 8  
YV8 C12  C9  C 0 1 Y N N N N N -20.425 -10.997 8.059  -3.344 0.868  0.981  C12  YV8 9  
YV8 C13  C10 C 0 1 Y N N N N N -19.899 -11.091 6.790  -4.672 0.740  0.621  C13  YV8 10 
YV8 C15  C11 C 0 1 Y N N N N N -20.248 -12.149 5.972  -5.009 0.377  -0.673 C15  YV8 11 
YV8 C16  C12 C 0 1 N N N N N N -19.644 -12.269 4.564  -6.459 0.233  -1.058 C16  YV8 12 
YV8 C18  C13 C 0 1 N N N N N N -20.777 -9.729  3.686  -8.735 -1.415 -1.278 C18  YV8 13 
YV8 C21  C14 C 0 1 Y N N N N N -21.116 -13.120 6.435  -4.021 0.141  -1.611 C21  YV8 14 
YV8 C22  C15 C 0 1 Y N N N N N -21.655 -13.024 7.704  -2.691 0.272  -1.266 C22  YV8 15 
YV8 C23  C16 C 0 1 Y N N N N N -22.009 -12.785 10.904 0.037  1.754  -0.100 C23  YV8 16 
YV8 C24  C17 C 0 1 Y N N N N N -21.762 -14.168 10.973 -0.058 2.792  -1.030 C24  YV8 17 
YV8 C25  C18 C 0 1 Y N N N N N -22.026 -14.844 12.158 1.038  3.559  -1.306 C25  YV8 18 
YV8 C26  C19 C 0 1 Y N N N N N -22.545 -14.168 13.275 2.247  3.314  -0.669 C26  YV8 19 
YV8 C28  C20 C 0 1 N N N N N N -25.560 -13.151 15.201 4.706  -0.354 1.086  C28  YV8 20 
YV8 C29  C21 C 0 1 N N S N N N -26.957 -12.572 15.148 5.316  -1.266 0.003  C29  YV8 21 
YV8 C30  C22 C 0 1 N N N N N N -28.047 -13.597 14.927 6.782  -1.568 0.319  C30  YV8 22 
YV8 C31  C23 C 0 1 N N N N N N -28.409 -14.338 16.210 7.327  -2.571 -0.699 C31  YV8 23 
YV8 C32  C24 C 0 1 N N N N N N -29.762 -15.058 16.117 8.793  -2.873 -0.383 C32  YV8 24 
YV8 C35  C25 C 0 1 N N N N N N -25.625 -11.352 13.720 4.632  0.700  -0.943 C35  YV8 25 
YV8 F14  F1  F 0 1 N N N N N N -19.033 -10.108 6.379  -5.642 0.968  1.533  F14  YV8 26 
YV8 N05  N1  N 0 1 Y N N N N N -22.673 -10.852 11.715 1.076  0.438  1.401  N05  YV8 27 
YV8 N27  N2  N 0 1 N N N N N N -24.785 -12.172 14.509 4.316  0.858  0.350  N27  YV8 28 
YV8 N33  N3  N 0 1 N N N N N N -29.795 -16.235 16.965 9.316  -3.837 -1.361 N33  YV8 29 
YV8 O08  O1  O 0 1 N N N N N N -22.965 -9.292  8.703  -1.955 -1.437 1.949  O08  YV8 30 
YV8 O09  O2  O 0 1 N N N N N N -22.417 -8.232  10.595 -0.009 -1.810 2.957  O09  YV8 31 
YV8 O19  O3  O 0 1 N N N N N N -22.057 -12.115 3.438  -6.289 -2.335 -1.633 O19  YV8 32 
YV8 O20  O4  O 0 1 N N N N N N -20.202 -11.673 1.967  -6.955 -1.719 0.644  O20  YV8 33 
YV8 O34  O5  O 0 1 N N N N N N -26.953 -11.645 14.014 5.205  -0.482 -1.220 O34  YV8 34 
YV8 O36  O6  O 0 1 N N N N N N -25.250 -10.524 12.927 4.420  1.548  -1.787 O36  YV8 35 
YV8 S17  S1  S 0 1 N N N N N N -20.725 -11.501 3.313  -6.999 -1.472 -0.754 S17  YV8 36 
YV8 H013 H1  H 0 0 N N N N N N -23.002 -11.798 16.520 4.127  4.137  1.178  H013 YV8 37 
YV8 H011 H2  H 0 0 N N N N N N -22.771 -13.459 15.877 5.551  3.072  1.237  H011 YV8 38 
YV8 H012 H3  H 0 0 N N N N N N -21.535 -12.195 15.563 4.765  3.420  -0.321 H012 YV8 39 
YV8 H021 H4  H 0 0 N N N N N N -23.125 -10.935 14.205 3.516  1.878  1.998  H021 YV8 40 
YV8 H121 H5  H 0 0 N N N N N N -20.143 -10.178 8.704  -3.081 1.150  1.990  H121 YV8 41 
YV8 H161 H6  H 0 0 N N N N N N -19.513 -13.333 4.320  -7.063 0.917  -0.462 H161 YV8 42 
YV8 H162 H7  H 0 0 N N N N N N -18.666 -11.766 4.550  -6.580 0.469  -2.115 H162 YV8 43 
YV8 H182 H8  H 0 0 N N N N N N -21.171 -9.579  4.702  -9.272 -0.683 -0.675 H182 YV8 44 
YV8 H181 H9  H 0 0 N N N N N N -19.762 -9.311  3.621  -8.788 -1.130 -2.328 H181 YV8 45 
YV8 H183 H10 H 0 0 N N N N N N -21.430 -9.221  2.961  -9.187 -2.398 -1.144 H183 YV8 46 
YV8 H211 H11 H 0 0 N N N N N N -21.374 -13.957 5.803  -4.290 -0.141 -2.618 H211 YV8 47 
YV8 H221 H12 H 0 0 N N N N N N -22.336 -13.782 8.062  -1.921 0.088  -2.000 H221 YV8 48 
YV8 H241 H13 H 0 0 N N N N N N -21.372 -14.698 10.116 -0.996 2.987  -1.530 H241 YV8 49 
YV8 H251 H14 H 0 0 N N N N N N -21.829 -15.904 12.221 0.964  4.361  -2.025 H251 YV8 50 
YV8 H261 H15 H 0 0 N N N N N N -22.741 -14.713 14.186 3.105  3.928  -0.898 H261 YV8 51 
YV8 H281 H16 H 0 0 N N N N N N -25.515 -14.125 14.691 3.834  -0.826 1.537  H281 YV8 52 
YV8 H282 H17 H 0 0 N N N N N N -25.218 -13.265 16.240 5.448  -0.117 1.849  H282 YV8 53 
YV8 H291 H18 H 0 0 N N N N N N -27.158 -12.023 16.080 4.746  -2.191 -0.083 H291 YV8 54 
YV8 H301 H19 H 0 0 N N N N N N -28.944 -13.085 14.549 7.362  -0.646 0.268  H301 YV8 55 
YV8 H302 H20 H 0 0 N N N N N N -27.700 -14.328 14.182 6.858  -1.990 1.322  H302 YV8 56 
YV8 H311 H21 H 0 0 N N N N N N -27.627 -15.083 16.418 6.747  -3.492 -0.648 H311 YV8 57 
YV8 H312 H22 H 0 0 N N N N N N -28.453 -13.612 17.035 7.251  -2.149 -1.701 H312 YV8 58 
YV8 H322 H23 H 0 0 N N N N N N -30.558 -14.367 16.433 9.373  -1.952 -0.434 H322 YV8 59 
YV8 H321 H24 H 0 0 N N N N N N -29.934 -15.363 15.074 8.869  -3.295 0.619  H321 YV8 60 
YV8 H051 H25 H 0 0 N N N N N N -23.029 -10.157 12.339 1.763  0.058  1.971  H051 YV8 61 
YV8 H331 H26 H 0 0 N N N N N N -30.686 -16.681 16.883 9.198  -3.496 -2.303 H331 YV8 62 
YV8 H1   H27 H 0 1 N N N N N N -29.077 -16.871 16.681 10.284 -4.053 -1.173 H1   YV8 63 
YV8 H2   H29 H 0 1 N N N N N N -22.787 -7.500  10.115 -0.467 -2.528 3.415  H2   YV8 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 
YV8 O20 S17  DOUB N N 1  
YV8 S17 O19  DOUB N N 2  
YV8 S17 C18  SING N N 3  
YV8 S17 C16  SING N N 4  
YV8 C16 C15  SING N N 5  
YV8 C15 C21  DOUB Y N 6  
YV8 C15 C13  SING Y N 7  
YV8 F14 C13  SING N N 8  
YV8 C21 C22  SING Y N 9  
YV8 C13 C12  DOUB Y N 10 
YV8 C22 C11  DOUB Y N 11 
YV8 C12 C11  SING Y N 12 
YV8 C11 C10  SING N N 13 
YV8 O08 C07  DOUB N N 14 
YV8 C07 C06  SING N N 15 
YV8 C07 O09  SING N N 16 
YV8 C10 C06  DOUB Y N 17 
YV8 C10 C23  SING Y N 18 
YV8 C06 N05  SING Y N 19 
YV8 C23 C24  DOUB Y N 20 
YV8 C23 C04  SING Y N 21 
YV8 C24 C25  SING Y N 22 
YV8 N05 C04  SING Y N 23 
YV8 C04 C03  DOUB Y N 24 
YV8 C25 C26  DOUB Y N 25 
YV8 O36 C35  DOUB N N 26 
YV8 C03 C26  SING Y N 27 
YV8 C03 C02  SING N N 28 
YV8 C35 O34  SING N N 29 
YV8 C35 N27  SING N N 30 
YV8 O34 C29  SING N N 31 
YV8 C02 N27  SING N N 32 
YV8 C02 C01  SING N N 33 
YV8 N27 C28  SING N N 34 
YV8 C30 C29  SING N N 35 
YV8 C30 C31  SING N N 36 
YV8 C29 C28  SING N N 37 
YV8 C32 C31  SING N N 38 
YV8 C32 N33  SING N N 39 
YV8 C01 H013 SING N N 40 
YV8 C01 H011 SING N N 41 
YV8 C01 H012 SING N N 42 
YV8 C02 H021 SING N N 43 
YV8 C12 H121 SING N N 44 
YV8 C16 H161 SING N N 45 
YV8 C16 H162 SING N N 46 
YV8 C18 H182 SING N N 47 
YV8 C18 H181 SING N N 48 
YV8 C18 H183 SING N N 49 
YV8 C21 H211 SING N N 50 
YV8 C22 H221 SING N N 51 
YV8 C24 H241 SING N N 52 
YV8 C25 H251 SING N N 53 
YV8 C26 H261 SING N N 54 
YV8 C28 H281 SING N N 55 
YV8 C28 H282 SING N N 56 
YV8 C29 H291 SING N N 57 
YV8 C30 H301 SING N N 58 
YV8 C30 H302 SING N N 59 
YV8 C31 H311 SING N N 60 
YV8 C31 H312 SING N N 61 
YV8 C32 H322 SING N N 62 
YV8 C32 H321 SING N N 63 
YV8 N05 H051 SING N N 64 
YV8 N33 H331 SING N N 65 
YV8 N33 H1   SING N N 66 
YV8 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 
YV8 InChI            InChI                1.06  "InChI=1S/C25H28FN3O6S/c1-14(29-12-17(5-4-10-27)35-25(29)32)18-6-3-7-19-21(23(24(30)31)28-22(18)19)15-8-9-16(20(26)11-15)13-36(2,33)34/h3,6-9,11,14,17,28H,4-5,10,12-13,27H2,1-2H3,(H,30,31)/t14-,17-/m0/s1" 
YV8 InChIKey         InChI                1.06  QAHBWVAOQZLFQE-YOEHRIQHSA-N                                                                                                                                                                                  
YV8 SMILES_CANONICAL CACTVS               3.385 "C[C@H](N1C[C@H](CCCN)OC1=O)c2cccc3c2[nH]c(C(O)=O)c3c4ccc(C[S](C)(=O)=O)c(F)c4"                                                                                                                              
YV8 SMILES           CACTVS               3.385 "C[CH](N1C[CH](CCCN)OC1=O)c2cccc3c2[nH]c(C(O)=O)c3c4ccc(C[S](C)(=O)=O)c(F)c4"                                                                                                                                
YV8 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[C@@H](OC4=O)CCCN"                                                                                                                              
YV8 SMILES           "OpenEye OEToolkits" 2.0.7 "CC(c1cccc2c1[nH]c(c2c3ccc(c(c3)F)CS(=O)(=O)C)C(=O)O)N4CC(OC4=O)CCCN"                                                                                                                                        
# 
_pdbx_chem_comp_identifier.comp_id           YV8 
_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~{S})-5-(3-azanylpropyl)-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 
YV8 "Create component" 2023-06-21 PDBE 
YV8 "Initial release"  2024-07-10 RCSB 
# 
