data_9MD
# 
_chem_comp.id                                    9MD 
_chem_comp.name                                  "(2S)-2-[6-chloro-2-(4-chlorophenyl)-5-fluoro-1H-benzimidazol-1-yl]-N-cyclohexyl-2-[(2S)-oxan-2-yl]acetamide" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C26 H28 Cl2 F N3 O2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2017-05-19 
_chem_comp.pdbx_modified_date                    2017-06-30 
_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                        504.424 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     9MD 
_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        5Q13 
_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.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 
9MD C4   C1  C  0 1 Y N N -0.362 20.103 64.023 3.626  2.674  0.984  C4   9MD 1  
9MD C5   C2  C  0 1 Y N N 0.139  21.267 64.611 2.367  2.236  0.561  C5   9MD 2  
9MD C6   C3  C  0 1 Y N N 0.749  21.195 65.858 2.196  0.896  0.171  C6   9MD 3  
9MD C8   C4  C  0 1 Y N N 0.725  23.282 65.106 0.280  1.990  -0.014 C8   9MD 4  
9MD C10  C5  C  0 1 Y N N 1.026  24.720 65.036 -1.142 2.297  -0.284 C10  9MD 5  
9MD C13  C6  C  0 1 N N S 1.049  23.184 68.650 1.258  -1.550 -0.869 C13  9MD 6  
9MD C20  C7  C  0 1 N N N -0.409 22.312 70.502 3.196  -2.289 -2.257 C20  9MD 7  
9MD C21  C8  C  0 1 N N N 0.285  21.969 69.147 2.188  -1.160 -2.021 C21  9MD 8  
9MD C22  C9  C  0 1 N N N 6.035  22.293 65.631 -3.048 -3.786 0.800  C22  9MD 9  
9MD C24  C10 C  0 1 N N N 7.212  20.437 64.429 -5.372 -3.315 1.586  C24  9MD 10 
9MD C26  C11 C  0 1 N N N 4.877  20.057 65.345 -3.913 -1.442 0.808  C26  9MD 11 
9MD C28  C12 C  0 1 Y N N 2.502  26.235 63.860 -3.135 1.952  -1.578 C28  9MD 12 
9MD C19  C13 C  0 1 N N N -1.254 23.577 70.398 2.434  -3.588 -2.540 C19  9MD 13 
9MD C18  C14 C  0 1 N N N -0.441 24.726 69.766 1.494  -3.884 -1.368 C18  9MD 14 
9MD O17  O1  O  0 1 N N N 0.181  24.311 68.489 0.604  -2.782 -1.183 O17  9MD 15 
9MD C11  C15 C  0 1 N N S 1.855  23.027 67.359 0.211  -0.454 -0.665 C11  9MD 16 
9MD C12  C16 C  0 1 N N N 3.181  22.299 67.494 -0.803 -0.910 0.352  C12  9MD 17 
9MD O14  O2  O  0 1 N N N 3.667  22.037 68.590 -0.869 -0.359 1.431  O14  9MD 18 
9MD N15  N1  N  0 1 N N N 3.756  21.983 66.339 -1.635 -1.930 0.064  N15  9MD 19 
9MD C16  C17 C  0 1 N N N 5.023  21.300 66.223 -2.677 -2.318 1.019  C16  9MD 20 
9MD C23  C18 C  0 1 N N N 7.374  21.634 65.339 -4.135 -4.191 1.797  C23  9MD 21 
9MD C25  C19 C  0 1 N N N 6.245  19.416 65.050 -5.001 -1.847 1.804  C25  9MD 22 
9MD N7   N2  N  0 1 Y N N 1.123  22.506 66.159 0.867  0.766  -0.188 N7   9MD 23 
9MD C3   C20 C  0 1 Y N N 0.895  20.017 66.557 3.271  0.020  0.208  C3   9MD 24 
9MD C2   C21 C  0 1 Y N N 0.399  18.880 65.973 4.508  0.467  0.628  C2   9MD 25 
9MD C1   C22 C  0 1 Y N N -0.219 18.929 64.730 4.683  1.791  1.015  C1   9MD 26 
9MD N9   N3  N  0 1 Y N N 0.144  22.590 64.147 1.166  2.849  0.426  N9   9MD 27 
9MD C27  C23 C  0 1 Y N N 2.028  24.963 64.092 -1.809 1.661  -1.332 C27  9MD 28 
9MD C29  C24 C  0 1 Y N N 1.992  27.281 64.588 -3.803 2.872  -0.789 C29  9MD 29 
9MD C31  C25 C  0 1 Y N N 1.008  27.087 65.547 -3.148 3.503  0.255  C31  9MD 30 
9MD C30  C26 C  0 1 Y N N 0.528  25.795 65.778 -1.822 3.220  0.512  C30  9MD 31 
9MD CL34 CL1 CL 0 0 N N N 2.610  28.880 64.286 -5.472 3.233  -1.105 CL34 9MD 32 
9MD F32  F1  F  0 1 N N N -0.693 17.782 64.199 5.899  2.215  1.423  F32  9MD 33 
9MD CL33 CL2 CL 0 0 N N N 0.552  17.381 66.812 5.852  -0.630 0.674  CL33 9MD 34 
9MD H1   H1  H  0 1 N N N -0.841 20.123 63.055 3.770  3.703  1.281  H1   9MD 35 
9MD H2   H2  H  0 1 N N N 1.775  23.437 69.437 1.841  -1.670 0.044  H2   9MD 36 
9MD H3   H3  H  0 1 N N N -1.058 21.473 70.793 3.826  -2.043 -3.112 H3   9MD 37 
9MD H4   H4  H  0 1 N N N 0.364  22.462 71.271 3.818  -2.415 -1.371 H4   9MD 38 
9MD H5   H5  H  0 1 N N N -0.477 21.686 68.406 1.601  -1.000 -2.925 H5   9MD 39 
9MD H6   H6  H  0 1 N N N 0.983  21.131 69.294 2.721  -0.244 -1.764 H6   9MD 40 
9MD H7   H7  H  0 1 N N N 6.191  23.112 66.349 -3.418 -3.920 -0.216 H7   9MD 41 
9MD H8   H8  H  0 1 N N N 5.627  22.700 64.694 -2.167 -4.410 0.951  H8   9MD 42 
9MD H9   H9  H  0 1 N N N 8.192  19.962 64.278 -5.743 -3.449 0.570  H9   9MD 43 
9MD H10  H10 H  0 1 N N N 6.813  20.770 63.460 -6.147 -3.603 2.296  H10  9MD 44 
9MD H11  H11 H  0 1 N N N 4.403  20.343 64.394 -3.649 -0.396 0.963  H11  9MD 45 
9MD H12  H12 H  0 1 N N N 4.243  19.324 65.865 -4.284 -1.576 -0.209 H12  9MD 46 
9MD H13  H13 H  0 1 N N N 3.265  26.407 63.115 -3.652 1.460  -2.389 H13  9MD 47 
9MD H14  H14 H  0 1 N N N -1.580 23.877 71.405 1.852  -3.477 -3.455 H14  9MD 48 
9MD H15  H15 H  0 1 N N N -2.135 23.372 69.773 3.143  -4.408 -2.656 H15  9MD 49 
9MD H16  H16 H  0 1 N N N 0.350  25.032 70.466 0.918  -4.784 -1.583 H16  9MD 50 
9MD H17  H17 H  0 1 N N N -1.112 25.577 69.577 2.080  -4.035 -0.462 H17  9MD 51 
9MD H18  H18 H  0 1 N N N 2.135  24.056 67.087 -0.291 -0.250 -1.611 H18  9MD 52 
9MD H19  H19 H  0 1 N N N 3.281  22.234 65.496 -1.544 -2.408 -0.775 H19  9MD 53 
9MD H20  H20 H  0 1 N N N 5.374  20.991 67.218 -2.306 -2.184 2.035  H20  9MD 54 
9MD H21  H21 H  0 1 N N N 7.825  21.305 66.287 -4.400 -5.237 1.642  H21  9MD 55 
9MD H22  H22 H  0 1 N N N 8.035  22.366 64.853 -3.765 -4.057 2.813  H22  9MD 56 
9MD H23  H23 H  0 1 N N N 6.106  18.580 64.349 -5.882 -1.223 1.654  H23  9MD 57 
9MD H24  H24 H  0 1 N N N 6.675  19.039 65.990 -4.631 -1.713 2.821  H24  9MD 58 
9MD H25  H25 H  0 1 N N N 1.379  19.990 67.522 3.141  -1.010 -0.090 H25  9MD 59 
9MD H26  H26 H  0 1 N N N 2.439  24.136 63.533 -1.289 0.943  -1.948 H26  9MD 60 
9MD H27  H27 H  0 1 N N N 0.618  27.924 66.108 -3.674 4.220  0.868  H27  9MD 61 
9MD H28  H28 H  0 1 N N N -0.228 25.627 66.530 -1.312 3.712  1.327  H28  9MD 62 
# 
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 
9MD C28  C27  DOUB Y N 1  
9MD C28  C29  SING Y N 2  
9MD C4   C5   DOUB Y N 3  
9MD C4   C1   SING Y N 4  
9MD C27  C10  SING Y N 5  
9MD N9   C5   SING Y N 6  
9MD N9   C8   DOUB Y N 7  
9MD F32  C1   SING N N 8  
9MD CL34 C29  SING N N 9  
9MD C24  C25  SING N N 10 
9MD C24  C23  SING N N 11 
9MD C29  C31  DOUB Y N 12 
9MD C5   C6   SING Y N 13 
9MD C1   C2   DOUB Y N 14 
9MD C10  C8   SING N N 15 
9MD C10  C30  DOUB Y N 16 
9MD C25  C26  SING N N 17 
9MD C8   N7   SING Y N 18 
9MD C23  C22  SING N N 19 
9MD C26  C16  SING N N 20 
9MD C31  C30  SING Y N 21 
9MD C22  C16  SING N N 22 
9MD C6   N7   SING Y N 23 
9MD C6   C3   DOUB Y N 24 
9MD C2   C3   SING Y N 25 
9MD C2   CL33 SING N N 26 
9MD N7   C11  SING N N 27 
9MD C16  N15  SING N N 28 
9MD N15  C12  SING N N 29 
9MD C11  C12  SING N N 30 
9MD C11  C13  SING N N 31 
9MD C12  O14  DOUB N N 32 
9MD O17  C13  SING N N 33 
9MD O17  C18  SING N N 34 
9MD C13  C21  SING N N 35 
9MD C21  C20  SING N N 36 
9MD C18  C19  SING N N 37 
9MD C19  C20  SING N N 38 
9MD C4   H1   SING N N 39 
9MD C13  H2   SING N N 40 
9MD C20  H3   SING N N 41 
9MD C20  H4   SING N N 42 
9MD C21  H5   SING N N 43 
9MD C21  H6   SING N N 44 
9MD C22  H7   SING N N 45 
9MD C22  H8   SING N N 46 
9MD C24  H9   SING N N 47 
9MD C24  H10  SING N N 48 
9MD C26  H11  SING N N 49 
9MD C26  H12  SING N N 50 
9MD C28  H13  SING N N 51 
9MD C19  H14  SING N N 52 
9MD C19  H15  SING N N 53 
9MD C18  H16  SING N N 54 
9MD C18  H17  SING N N 55 
9MD C11  H18  SING N N 56 
9MD N15  H19  SING N N 57 
9MD C16  H20  SING N N 58 
9MD C23  H21  SING N N 59 
9MD C23  H22  SING N N 60 
9MD C25  H23  SING N N 61 
9MD C25  H24  SING N N 62 
9MD C3   H25  SING N N 63 
9MD C27  H26  SING N N 64 
9MD C31  H27  SING N N 65 
9MD C30  H28  SING N N 66 
# 
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 
9MD SMILES           ACDLabs              12.01 "c5c2c(n(c(c1ccc(cc1)Cl)n2)C(C3CCCCO3)C(=O)NC4CCCCC4)cc(Cl)c5F"                                                                                                                                
9MD InChI            InChI                1.03  "InChI=1S/C26H28Cl2FN3O2/c27-17-11-9-16(10-12-17)25-31-21-15-20(29)19(28)14-22(21)32(25)24(23-8-4-5-13-34-23)26(33)30-18-6-2-1-3-7-18/h9-12,14-15,18,23-24H,1-8,13H2,(H,30,33)/t23-,24-/m0/s1" 
9MD InChIKey         InChI                1.03  GSCSJUCYZMUKCP-ZEQRLZLVSA-N                                                                                                                                                                    
9MD SMILES_CANONICAL CACTVS               3.385 "Fc1cc2nc(n([C@@H]([C@@H]3CCCCO3)C(=O)NC4CCCCC4)c2cc1Cl)c5ccc(Cl)cc5"                                                                                                                          
9MD SMILES           CACTVS               3.385 "Fc1cc2nc(n([CH]([CH]3CCCCO3)C(=O)NC4CCCCC4)c2cc1Cl)c5ccc(Cl)cc5"                                                                                                                              
9MD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "c1cc(ccc1c2nc3cc(c(cc3n2[C@@H]([C@@H]4CCCCO4)C(=O)NC5CCCCC5)Cl)F)Cl"                                                                                                                          
9MD SMILES           "OpenEye OEToolkits" 2.0.6 "c1cc(ccc1c2nc3cc(c(cc3n2C(C4CCCCO4)C(=O)NC5CCCCC5)Cl)F)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 
9MD "SYSTEMATIC NAME" ACDLabs              12.01 "(2S)-2-[6-chloro-2-(4-chlorophenyl)-5-fluoro-1H-benzimidazol-1-yl]-N-cyclohexyl-2-[(2S)-oxan-2-yl]acetamide"              
9MD "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "(2~{S})-2-[6-chloranyl-2-(4-chlorophenyl)-5-fluoranyl-benzimidazol-1-yl]-~{N}-cyclohexyl-2-[(2~{S})-oxan-2-yl]ethanamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
9MD "Create component" 2017-05-19 RCSB 
9MD "Initial release"  2017-07-05 RCSB 
# 
