data_YQ3
# 
_chem_comp.id                                    YQ3 
_chem_comp.name                                  "(5M)-5-(2-chloro-4-methylphenyl)-1-[(pyridin-4-yl)methyl]-1H-benzimidazole-7-carboxylic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C21 H16 Cl N3 O2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-02-15 
_chem_comp.pdbx_modified_date                    2024-02-16 
_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                        377.824 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YQ3 
_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        7FUB 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
# 
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 
YQ3 C10 C1  C  0 1 Y N N N N N 10.728 -16.111 -16.102 1.173  1.021  0.524  C10 YQ3 1  
YQ3 C11 C2  C  0 1 Y N N N N N 11.498 -15.150 -16.753 -0.220 1.005  0.451  C11 YQ3 2  
YQ3 C13 C3  C  0 1 Y N N N N N 13.063 -13.949 -17.572 -2.352 1.423  0.466  C13 YQ3 3  
YQ3 C15 C4  C  0 1 N N N N N N 11.825 -12.058 -18.688 -3.321 -0.802 -0.221 C15 YQ3 4  
YQ3 C16 C5  C  0 1 Y N N N N N 11.915 -12.099 -20.191 -4.641 -0.103 -0.020 C16 YQ3 5  
YQ3 C17 C6  C  0 1 Y N N N N N 12.388 -13.201 -20.873 -5.193 0.675  -1.027 C17 YQ3 6  
YQ3 C18 C7  C  0 1 Y N N N N N 12.447 -13.164 -22.251 -6.405 1.301  -0.806 C18 YQ3 7  
YQ3 C20 C8  C  0 1 Y N N N N N 11.631 -11.043 -22.308 -6.542 0.430  1.322  C20 YQ3 8  
YQ3 C21 C9  C  0 1 Y N N N N N 11.540 -10.994 -20.933 -5.334 -0.226 1.174  C21 YQ3 9  
YQ3 C22 C10 C  0 1 Y N N N N N 10.879 -14.080 -17.415 -0.884 -0.176 0.080  C22 YQ3 10 
YQ3 C23 C11 C  0 1 Y N N N N N 9.474  -13.996 -17.416 -0.146 -1.333 -0.215 C23 YQ3 11 
YQ3 C24 C12 C  0 1 N N N N N N 8.663  -12.936 -18.074 -0.838 -2.574 -0.606 C24 YQ3 12 
YQ3 C27 C13 C  0 1 Y N N N N N 8.724  -14.977 -16.764 1.244  -1.301 -0.138 C27 YQ3 13 
YQ3 C1  C14 C  0 1 N N N N N N 6.179  -19.888 -13.096 7.650  -0.031 0.535  C1  YQ3 14 
YQ3 C2  C15 C  0 1 Y N N N N N 7.003  -18.902 -13.887 6.145  -0.055 0.453  C2  YQ3 15 
YQ3 C3  C16 C  0 1 Y N N N N N 7.549  -19.254 -15.110 5.478  0.931  -0.250 C3  YQ3 16 
YQ3 C4  C17 C  0 1 Y N N N N N 8.296  -18.348 -15.834 4.099  0.914  -0.328 C4  YQ3 17 
YQ3 C6  C18 C  0 1 Y N N N N N 8.526  -17.056 -15.380 3.381  -0.101 0.304  C6  YQ3 18 
YQ3 C7  C19 C  0 1 Y N N N N N 7.984  -16.709 -14.142 4.059  -1.091 1.010  C7  YQ3 19 
YQ3 C8  C20 C  0 1 Y N N N N N 7.226  -17.617 -13.421 5.438  -1.067 1.077  C8  YQ3 20 
YQ3 C9  C21 C  0 1 Y N N N N N 9.336  -16.040 -16.103 1.899  -0.125 0.224  C9  YQ3 21 
YQ3 N12 N1  N  0 1 Y N N N N N 12.880 -15.039 -16.862 -1.178 1.943  0.673  N12 YQ3 22 
YQ3 N14 N2  N  0 1 Y N N N N N 11.910 -13.333 -17.968 -2.227 0.118  0.098  N14 YQ3 23 
YQ3 N19 N3  N  0 1 Y N N N N N 12.071 -12.109 -22.981 -7.034 1.166  0.345  N19 YQ3 24 
YQ3 O25 O1  O  0 1 N N N N N N 7.700  -13.208 -18.797 -2.040 -2.570 -0.784 O25 YQ3 25 
YQ3 O26 O2  O  0 1 N N N N N N 9.037  -11.720 -17.805 -0.137 -3.714 -0.767 O26 YQ3 26 
YQ3 CL5 CL1 CL 0 0 N N N N N N 8.949  -18.858 -17.352 3.261  2.153  -1.210 CL5 YQ3 27 
YQ3 H34 H1  H  0 1 N N N N N N 11.218 -16.925 -15.588 1.688  1.927  0.809  H34 YQ3 28 
YQ3 H35 H2  H  0 1 N N N N N N 14.044 -13.571 -17.822 -3.290 1.949  0.571  H35 YQ3 29 
YQ3 H37 H3  H  0 1 N N N N N N 10.861 -11.597 -18.428 -3.267 -1.672 0.435  H37 YQ3 30 
YQ3 H36 H4  H  0 1 N N N N N N 12.645 -11.420 -18.326 -3.235 -1.124 -1.259 H36 YQ3 31 
YQ3 H38 H5  H  0 1 N N N N N N 12.708 -14.081 -20.335 -4.681 0.790  -1.971 H38 YQ3 32 
YQ3 H39 H6  H  0 1 N N N N N N 12.818 -14.036 -22.769 -6.841 1.908  -1.585 H39 YQ3 33 
YQ3 H40 H7  H  0 1 N N N N N N 11.330 -10.172 -22.871 -7.089 0.339  2.249  H40 YQ3 34 
YQ3 H41 H8  H  0 1 N N N N N N 11.180 -10.103 -20.441 -4.937 -0.827 1.979  H41 YQ3 35 
YQ3 H43 H9  H  0 1 N N N N N N 7.646  -14.910 -16.772 1.817  -2.189 -0.364 H43 YQ3 36 
YQ3 H30 H10 H  0 1 N N N N N N 6.835  -20.457 -12.421 7.957  0.545  1.407  H30 YQ3 37 
YQ3 H28 H11 H  0 1 N N N N N N 5.426  -19.346 -12.505 8.025  -1.051 0.622  H28 YQ3 38 
YQ3 H29 H12 H  0 1 N N N N N N 5.674  -20.580 -13.786 8.055  0.430  -0.366 H29 YQ3 39 
YQ3 H31 H13 H  0 1 N N N N N N 7.388  -20.248 -15.501 6.036  1.716  -0.739 H31 YQ3 40 
YQ3 H32 H14 H  0 1 N N N N N N 8.157  -15.721 -13.741 3.508  -1.879 1.502  H32 YQ3 41 
YQ3 H33 H15 H  0 1 N N N N N N 6.800  -17.316 -12.475 5.964  -1.837 1.621  H33 YQ3 42 
YQ3 H42 H16 H  0 1 N N N N N N 8.461  -11.106 -18.246 -0.635 -4.503 -1.023 H42 YQ3 43 
# 
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 
YQ3 C1  C2  SING N N 1  
YQ3 C2  C3  DOUB Y N 2  
YQ3 C2  C8  SING Y N 3  
YQ3 C3  C4  SING Y N 4  
YQ3 C4  CL5 SING N N 5  
YQ3 C4  C6  DOUB Y N 6  
YQ3 C6  C7  SING Y N 7  
YQ3 C6  C9  SING N N 8  
YQ3 C7  C8  DOUB Y N 9  
YQ3 C9  C10 DOUB Y N 10 
YQ3 C9  C27 SING Y N 11 
YQ3 C10 C11 SING Y N 12 
YQ3 C11 N12 SING Y N 13 
YQ3 C11 C22 DOUB Y N 14 
YQ3 N12 C13 DOUB Y N 15 
YQ3 C13 N14 SING Y N 16 
YQ3 N14 C15 SING N N 17 
YQ3 N14 C22 SING Y N 18 
YQ3 C15 C16 SING N N 19 
YQ3 C16 C17 DOUB Y N 20 
YQ3 C16 C21 SING Y N 21 
YQ3 C17 C18 SING Y N 22 
YQ3 C18 N19 DOUB Y N 23 
YQ3 N19 C20 SING Y N 24 
YQ3 C20 C21 DOUB Y N 25 
YQ3 C22 C23 SING Y N 26 
YQ3 C23 C24 SING N N 27 
YQ3 C23 C27 DOUB Y N 28 
YQ3 C24 O25 DOUB N N 29 
YQ3 C24 O26 SING N N 30 
YQ3 C10 H34 SING N N 31 
YQ3 C13 H35 SING N N 32 
YQ3 C15 H37 SING N N 33 
YQ3 C15 H36 SING N N 34 
YQ3 C17 H38 SING N N 35 
YQ3 C18 H39 SING N N 36 
YQ3 C20 H40 SING N N 37 
YQ3 C21 H41 SING N N 38 
YQ3 C27 H43 SING N N 39 
YQ3 C1  H30 SING N N 40 
YQ3 C1  H28 SING N N 41 
YQ3 C1  H29 SING N N 42 
YQ3 C3  H31 SING N N 43 
YQ3 C7  H32 SING N N 44 
YQ3 C8  H33 SING N N 45 
YQ3 O26 H42 SING N N 46 
# 
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 
YQ3 SMILES           ACDLabs              12.01 "Cc1ccc(c2cc3ncn(Cc4ccncc4)c3c(c2)C(=O)O)c(Cl)c1"                                                                                         
YQ3 InChI            InChI                1.06  "InChI=1S/C21H16ClN3O2/c1-13-2-3-16(18(22)8-13)15-9-17(21(26)27)20-19(10-15)24-12-25(20)11-14-4-6-23-7-5-14/h2-10,12H,11H2,1H3,(H,26,27)" 
YQ3 InChIKey         InChI                1.06  BLIMBRVIWSATHU-UHFFFAOYSA-N                                                                                                               
YQ3 SMILES_CANONICAL CACTVS               3.385 "Cc1ccc(c(Cl)c1)c2cc3ncn(Cc4ccncc4)c3c(c2)C(O)=O"                                                                                         
YQ3 SMILES           CACTVS               3.385 "Cc1ccc(c(Cl)c1)c2cc3ncn(Cc4ccncc4)c3c(c2)C(O)=O"                                                                                         
YQ3 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1ccc(c(c1)Cl)c2cc(c3c(c2)ncn3Cc4ccncc4)C(=O)O"                                                                                         
YQ3 SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1ccc(c(c1)Cl)c2cc(c3c(c2)ncn3Cc4ccncc4)C(=O)O"                                                                                         
# 
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 
YQ3 "SYSTEMATIC NAME" ACDLabs              12.01 "(5M)-5-(2-chloro-4-methylphenyl)-1-[(pyridin-4-yl)methyl]-1H-benzimidazole-7-carboxylic acid" 
YQ3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "6-(2-chloranyl-4-methyl-phenyl)-3-(pyridin-4-ylmethyl)benzimidazole-4-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 
YQ3 "Create component" 2023-02-15 RCSB 
YQ3 "Initial release"  2024-02-21 RCSB 
# 
