data_Y9V
# 
_chem_comp.id                                    Y9V 
_chem_comp.name                                  "N-[(2S)-5-chloro-2,3-dihydro-1H-inden-2-yl]-5-(3-methyl-1,2,4-oxadiazol-5-yl)pyrimidin-2-amine" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C16 H14 Cl N5 O" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-12 
_chem_comp.pdbx_modified_date                    2024-12-13 
_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                        327.768 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y9V 
_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        7G3W 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              ? 
# 
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 
Y9V C10  C1  C  0 1 Y N N N N N -12.477 4.205  44.212 -3.806 -0.485 -0.211 C10  Y9V 1  
Y9V C11  C2  C  0 1 Y N N N N N -11.994 3.070  43.783 -5.136 -0.553 -0.589 C11  Y9V 2  
Y9V C15  C3  C  0 1 Y N N N N N -11.104 5.401  42.718 -4.311 1.383  1.199  C15  Y9V 3  
Y9V C16  C4  C  0 1 Y N N N N N -12.065 5.402  43.687 -3.393 0.484  0.684  C16  Y9V 4  
Y9V C17  C5  C  0 1 N N N N N N -12.729 6.548  44.313 -1.906 0.350  0.934  C17  Y9V 5  
Y9V C18  C6  C  0 1 Y N N N N N -13.893 11.062 49.128 4.972  0.266  -0.134 C18  Y9V 6  
Y9V C21  C7  C  0 1 Y N N N N N -14.142 12.933 50.342 7.088  0.383  -0.032 C21  Y9V 7  
Y9V C23  C8  C  0 1 N N N N N N -14.808 14.023 51.069 8.540  0.060  0.212  C23  Y9V 8  
Y9V C1   C9  C  0 1 Y N N N N N -12.892 9.243  47.840 2.522  0.651  -0.464 C1   Y9V 9  
Y9V C2   C10 C  0 1 Y N N N N N -13.983 9.872  48.323 3.567  -0.177 -0.039 C2   Y9V 10 
Y9V C3   C11 C  0 1 Y N N N N N -15.286 9.336  47.992 3.246  -1.439 0.478  C3   Y9V 11 
Y9V N4   N1  N  0 1 Y N N N N N -15.529 8.270  47.342 1.977  -1.799 0.545  N4   Y9V 12 
Y9V C5   C12 C  0 1 Y N N N N N -14.319 7.646  46.844 1.016  -0.984 0.132  C5   Y9V 13 
Y9V N6   N2  N  0 1 Y N N N N N -13.021 8.095  47.138 1.279  0.217  -0.363 N6   Y9V 14 
Y9V N7   N3  N  0 1 N N N N N N -14.411 6.523  46.127 -0.298 -1.400 0.221  N7   Y9V 15 
Y9V C8   C13 C  0 1 N N R N N N -13.266 5.836  45.639 -1.378 -0.517 -0.229 C8   Y9V 16 
Y9V C9   C14 C  0 1 N N N N N N -13.491 4.380  45.289 -2.623 -1.333 -0.628 C9   Y9V 17 
Y9V C12  C15 C  0 1 Y N N N N N -11.003 3.101  42.759 -6.052 0.346  -0.074 C12  Y9V 18 
Y9V CL13 CL1 CL 0 0 N N N N N N -10.338 1.587  42.117 -7.719 0.257  -0.551 CL13 Y9V 19 
Y9V C14  C16 C  0 1 Y N N N N N -10.582 4.210  42.235 -5.638 1.315  0.821  C14  Y9V 20 
Y9V O19  O1  O  0 1 Y N N N N N -12.662 11.576 49.468 5.411  1.443  -0.608 O19  Y9V 21 
Y9V N20  N4  N  0 1 Y N N N N N -12.809 12.773 50.210 6.621  1.486  -0.539 N20  Y9V 22 
Y9V N22  N5  N  0 1 Y N N N N N -14.867 11.818 49.625 6.043  -0.416 0.235  N22  Y9V 23 
Y9V H30  H1  H  0 1 N N N N N N -12.337 2.132  44.194 -5.459 -1.310 -1.288 H30  Y9V 24 
Y9V H32  H2  H  0 1 N N N N N N -10.745 6.340  42.322 -3.989 2.140  1.899  H32  Y9V 25 
Y9V H34  H3  H  0 1 N N N N N N -13.550 6.938  43.693 -1.430 1.331  0.921  H34  Y9V 26 
Y9V H33  H4  H  0 1 N N N N N N -12.023 7.361  44.539 -1.726 -0.145 1.888  H33  Y9V 27 
Y9V H36  H5  H  0 1 N N N N N N -14.050 14.697 51.495 8.958  -0.422 -0.672 H36  Y9V 28 
Y9V H37  H6  H  0 1 N N N N N N -15.452 14.586 50.377 9.087  0.980  0.417  H37  Y9V 29 
Y9V H35  H7  H  0 1 N N N N N N -15.421 13.602 51.880 8.624  -0.611 1.066  H35  Y9V 30 
Y9V H24  H8  H  0 1 N N N N N N -11.911 9.659  48.015 2.728  1.633  -0.865 H24  Y9V 31 
Y9V H25  H9  H  0 1 N N N N N N -16.142 9.900  48.333 4.024  -2.107 0.816  H25  Y9V 32 
Y9V H26  H10 H  0 1 N N N N N N -14.906 5.868  46.698 -0.507 -2.276 0.581  H26  Y9V 33 
Y9V H27  H11 H  0 1 N N N N N N -12.461 5.889  46.386 -1.044 0.110  -1.056 H27  Y9V 34 
Y9V H28  H12 H  0 1 N N N N N N -13.292 3.720  46.146 -2.636 -2.286 -0.099 H28  Y9V 35 
Y9V H29  H13 H  0 1 N N N N N N -14.512 4.203  44.919 -2.638 -1.498 -1.706 H29  Y9V 36 
Y9V H31  H14 H  0 1 N N N N N N -9.846  4.206  41.445 -6.352 2.018  1.225  H31  Y9V 37 
# 
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 
Y9V C1  C2   DOUB Y N 1  
Y9V C1  N6   SING Y N 2  
Y9V C2  C3   SING Y N 3  
Y9V C2  C18  SING N N 4  
Y9V C3  N4   DOUB Y N 5  
Y9V N4  C5   SING Y N 6  
Y9V C5  N6   DOUB Y N 7  
Y9V C5  N7   SING N N 8  
Y9V N7  C8   SING N N 9  
Y9V C8  C9   SING N N 10 
Y9V C8  C17  SING N N 11 
Y9V C9  C10  SING N N 12 
Y9V C10 C11  DOUB Y N 13 
Y9V C10 C16  SING Y N 14 
Y9V C11 C12  SING Y N 15 
Y9V C12 CL13 SING N N 16 
Y9V C12 C14  DOUB Y N 17 
Y9V C14 C15  SING Y N 18 
Y9V C15 C16  DOUB Y N 19 
Y9V C16 C17  SING N N 20 
Y9V C18 O19  SING Y N 21 
Y9V C18 N22  DOUB Y N 22 
Y9V O19 N20  SING Y N 23 
Y9V N20 C21  DOUB Y N 24 
Y9V C21 N22  SING Y N 25 
Y9V C21 C23  SING N N 26 
Y9V C11 H30  SING N N 27 
Y9V C15 H32  SING N N 28 
Y9V C17 H34  SING N N 29 
Y9V C17 H33  SING N N 30 
Y9V C23 H36  SING N N 31 
Y9V C23 H37  SING N N 32 
Y9V C23 H35  SING N N 33 
Y9V C1  H24  SING N N 34 
Y9V C3  H25  SING N N 35 
Y9V N7  H26  SING N N 36 
Y9V C8  H27  SING N N 37 
Y9V C9  H28  SING N N 38 
Y9V C9  H29  SING N N 39 
Y9V C14 H31  SING N N 40 
# 
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 
Y9V SMILES           ACDLabs              12.01 "Cc1nc(on1)c1cnc(NC2Cc3ccc(Cl)cc3C2)nc1"                                                                                           
Y9V InChI            InChI                1.06  "InChI=1S/C16H14ClN5O/c1-9-20-15(23-22-9)12-7-18-16(19-8-12)21-14-5-10-2-3-13(17)4-11(10)6-14/h2-4,7-8,14H,5-6H2,1H3,(H,18,19,21)" 
Y9V InChIKey         InChI                1.06  JJQCQNKADMBVHU-UHFFFAOYSA-N                                                                                                        
Y9V SMILES_CANONICAL CACTVS               3.385 "Cc1noc(n1)c2cnc(N[C@@H]3Cc4ccc(Cl)cc4C3)nc2"                                                                                      
Y9V SMILES           CACTVS               3.385 "Cc1noc(n1)c2cnc(N[CH]3Cc4ccc(Cl)cc4C3)nc2"                                                                                        
Y9V SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1nc(on1)c2cnc(nc2)N[C@@H]3Cc4ccc(cc4C3)Cl"                                                                                      
Y9V SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1nc(on1)c2cnc(nc2)NC3Cc4ccc(cc4C3)Cl"                                                                                           
# 
loop_
_pdbx_chem_comp_identifier.comp_id 
_pdbx_chem_comp_identifier.type 
_pdbx_chem_comp_identifier.program 
_pdbx_chem_comp_identifier.program_version 
_pdbx_chem_comp_identifier.identifier 
Y9V "SYSTEMATIC NAME" ACDLabs              12.01 "N-[(2S)-5-chloro-2,3-dihydro-1H-inden-2-yl]-5-(3-methyl-1,2,4-oxadiazol-5-yl)pyrimidin-2-amine"             
Y9V "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "~{N}-[(2~{R})-5-chloranyl-2,3-dihydro-1~{H}-inden-2-yl]-5-(3-methyl-1,2,4-oxadiazol-5-yl)pyrimidin-2-amine" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
Y9V "Create component" 2023-06-12 RCSB 
Y9V "Initial release"  2024-12-18 RCSB 
# 
