data_JVO
# 
_chem_comp.id                                    JVO 
_chem_comp.name                                  "2-[4-[(2~{S})-3-[(6-chloranyl-1-propan-2-yl-benzimidazol-2-yl)amino]-2-oxidanyl-propoxy]phenyl]ethanenitrile" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C21 H23 Cl N4 O2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-08-09 
_chem_comp.pdbx_modified_date                    2024-01-12 
_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                        398.886 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     JVO 
_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        8Q5L 
_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 
JVO O2  O1  O  0 1 N N N N N N -56.201 -2.846 11.360 3.692  -1.150 0.009  O2  JVO 1  
JVO N1  N1  N  0 1 Y N N N N N -53.729 2.019  10.028 -3.594 -0.885 -0.192 N1  JVO 2  
JVO C1  C1  C  0 1 N N N N N N -53.411 2.383  7.599  -3.127 -2.723 -1.736 C1  JVO 3  
JVO C2  C2  C  0 1 N N N N N N -53.592 1.370  8.720  -3.824 -2.311 -0.437 C2  JVO 4  
JVO C3  C3  C  0 1 N N N N N N -52.483 0.330  8.730  -3.258 -3.126 0.727  C3  JVO 5  
JVO C4  C4  C  0 1 Y N N N N N -54.717 1.979  11.018 -2.383 -0.275 -0.033 C4  JVO 6  
JVO N2  N2  N  0 1 N N N N N N -55.888 1.307  11.052 -1.162 -0.915 -0.076 N2  JVO 7  
JVO C5  C5  C  0 1 N N N N N N -56.504 0.503  10.016 0.073  -0.150 0.109  C5  JVO 8  
JVO C6  C6  C  0 1 N N S N N N -57.011 -0.792 10.623 1.276  -1.092 0.017  C6  JVO 9  
JVO O1  O2  O  0 1 N N N N N N -57.961 -0.583 11.662 1.177  -2.091 1.034  O1  JVO 10 
JVO C7  C7  C  0 1 N N N N N N -55.774 -1.507 11.112 2.566  -0.293 0.210  C7  JVO 11 
JVO C8  C8  C  0 1 Y N N N N N -55.351 -3.877 11.075 4.924  -0.592 0.144  C8  JVO 12 
JVO C9  C9  C  0 1 Y N N N N N -55.086 -4.783 12.089 6.060  -1.366 -0.037 C9  JVO 13 
JVO C10 C10 C  0 1 Y N N N N N -54.256 -5.862 11.848 7.312  -0.797 0.101  C10 JVO 14 
JVO C11 C11 C  0 1 Y N N N N N -53.686 -6.066 10.603 7.431  0.544  0.420  C11 JVO 15 
JVO C12 C12 C  0 1 N N N N N N -52.789 -7.258 10.348 8.797  1.162  0.570  C12 JVO 16 
JVO C13 C13 C  0 1 N N N N N N -51.807 -7.503 11.398 9.245  1.685  -0.731 C13 JVO 17 
JVO N3  N3  N  0 1 N N N N N N -50.967 -7.673 12.155 9.590  2.088  -1.735 N3  JVO 18 
JVO C14 C14 C  0 1 Y N N N N N -53.975 -5.154 9.598  6.299  1.317  0.601  C14 JVO 19 
JVO C15 C15 C  0 1 Y N N N N N -54.804 -4.067 9.819  5.046  0.754  0.459  C15 JVO 20 
JVO N4  N4  N  0 1 Y N N N N N -54.439 2.725  12.065 -2.553 1.008  0.165  N4  JVO 21 
JVO C16 C16 C  0 1 Y N N N N N -53.204 3.290  11.775 -3.880 1.301  0.146  C16 JVO 22 
JVO C17 C17 C  0 1 Y N N N N N -52.435 4.160  12.543 -4.603 2.486  0.300  C17 JVO 23 
JVO C18 C18 C  0 1 Y N N N N N -51.232 4.586  12.039 -5.978 2.463  0.228  C18 JVO 24 
JVO C19 C19 C  0 1 Y N N N N N -50.807 4.155  10.795 -6.651 1.270  0.003  C19 JVO 25 
JVO CL1 CL1 CL 0 0 N N N N N N -49.267 4.727  10.206 -8.385 1.262  -0.084 CL1 JVO 26 
JVO C20 C20 C  0 1 Y N N N N N -51.546 3.291  10.009 -5.950 0.091  -0.152 C20 JVO 27 
JVO C21 C21 C  0 1 Y N N N N N -52.759 2.862  10.525 -4.566 0.097  -0.082 C21 JVO 28 
JVO H1  H1  H  0 1 N N N N N N -54.232 3.114  7.629  -3.298 -3.784 -1.918 H1  JVO 29 
JVO H2  H2  H  0 1 N N N N N N -52.451 2.905  7.728  -3.530 -2.142 -2.565 H2  JVO 30 
JVO H3  H3  H  0 1 N N N N N N -53.418 1.863  6.630  -2.057 -2.537 -1.648 H3  JVO 31 
JVO H4  H4  H  0 1 N N N N N N -54.531 0.834  8.517  -4.894 -2.497 -0.525 H4  JVO 32 
JVO H5  H5  H  0 1 N N N N N N -52.653 -0.380 9.553  -2.187 -2.940 0.814  H5  JVO 33 
JVO H6  H6  H  0 1 N N N N N N -52.480 -0.212 7.773  -3.754 -2.833 1.651  H6  JVO 34 
JVO H7  H7  H  0 1 N N N N N N -51.513 0.830  8.871  -3.428 -4.187 0.544  H7  JVO 35 
JVO H8  H8  H  0 1 N N N N N N -56.571 2.006  11.264 -1.121 -1.872 -0.228 H8  JVO 36 
JVO H9  H9  H  0 1 N N N N N N -55.762 0.278  9.236  0.148  0.612  -0.667 H9  JVO 37 
JVO H10 H10 H  0 1 N N N N N N -57.346 1.056  9.573  0.061  0.329  1.089  H10 JVO 38 
JVO H11 H11 H  0 1 N N N N N N -57.466 -1.394 9.823  1.288  -1.571 -0.962 H11 JVO 39 
JVO H12 H12 H  0 1 N N N N N N -58.245 -1.422 12.006 1.161  -1.736 1.934  H12 JVO 40 
JVO H13 H13 H  0 1 N N N N N N -54.986 -1.487 10.345 2.594  0.113  1.222  H13 JVO 41 
JVO H14 H14 H  0 1 N N N N N N -55.398 -1.043 12.036 2.598  0.525  -0.510 H14 JVO 42 
JVO H15 H15 H  0 1 N N N N N N -55.527 -4.647 13.065 5.968  -2.412 -0.286 H15 JVO 43 
JVO H16 H16 H  0 1 N N N N N N -54.048 -6.559 12.646 8.197  -1.399 -0.040 H16 JVO 44 
JVO H17 H17 H  0 1 N N N N N N -53.422 -8.152 10.253 8.750  1.977  1.293  H17 JVO 45 
JVO H18 H18 H  0 1 N N N N N N -52.250 -7.088 9.404  9.501  0.407  0.920  H18 JVO 46 
JVO H19 H19 H  0 1 N N N N N N -53.542 -5.295 8.619  6.396  2.365  0.846  H19 JVO 47 
JVO H20 H20 H  0 1 N N N N N N -55.021 -3.375 9.019  4.163  1.359  0.600  H20 JVO 48 
JVO H21 H21 H  0 1 N N N N N N -52.777 4.492  13.512 -4.086 3.418  0.476  H21 JVO 49 
JVO H22 H22 H  0 1 N N N N N N -50.615 5.260  12.615 -6.537 3.379  0.348  H22 JVO 50 
JVO H23 H23 H  0 1 N N N N N N -51.196 2.966  9.040  -6.479 -0.834 -0.327 H23 JVO 51 
# 
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 
JVO C1  C2  SING N N 1  
JVO C2  C3  SING N N 2  
JVO C2  N1  SING N N 3  
JVO C14 C15 DOUB Y N 4  
JVO C14 C11 SING Y N 5  
JVO C15 C8  SING Y N 6  
JVO C20 C21 DOUB Y N 7  
JVO C20 C19 SING Y N 8  
JVO C5  C6  SING N N 9  
JVO C5  N2  SING N N 10 
JVO N1  C21 SING Y N 11 
JVO N1  C4  SING Y N 12 
JVO CL1 C19 SING N N 13 
JVO C12 C11 SING N N 14 
JVO C12 C13 SING N N 15 
JVO C21 C16 SING Y N 16 
JVO C11 C10 DOUB Y N 17 
JVO C6  C7  SING N N 18 
JVO C6  O1  SING N N 19 
JVO C19 C18 DOUB Y N 20 
JVO C4  N2  SING N N 21 
JVO C4  N4  DOUB Y N 22 
JVO C8  O2  SING N N 23 
JVO C8  C9  DOUB Y N 24 
JVO C7  O2  SING N N 25 
JVO C13 N3  TRIP N N 26 
JVO C16 N4  SING Y N 27 
JVO C16 C17 DOUB Y N 28 
JVO C10 C9  SING Y N 29 
JVO C18 C17 SING Y N 30 
JVO C1  H1  SING N N 31 
JVO C1  H2  SING N N 32 
JVO C1  H3  SING N N 33 
JVO C2  H4  SING N N 34 
JVO C3  H5  SING N N 35 
JVO C3  H6  SING N N 36 
JVO C3  H7  SING N N 37 
JVO N2  H8  SING N N 38 
JVO C5  H9  SING N N 39 
JVO C5  H10 SING N N 40 
JVO C6  H11 SING N N 41 
JVO O1  H12 SING N N 42 
JVO C7  H13 SING N N 43 
JVO C7  H14 SING N N 44 
JVO C9  H15 SING N N 45 
JVO C10 H16 SING N N 46 
JVO C12 H17 SING N N 47 
JVO C12 H18 SING N N 48 
JVO C14 H19 SING N N 49 
JVO C15 H20 SING N N 50 
JVO C17 H21 SING N N 51 
JVO C18 H22 SING N N 52 
JVO C20 H23 SING N N 53 
# 
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 
JVO InChI            InChI                1.06  "InChI=1S/C21H23ClN4O2/c1-14(2)26-20-11-16(22)5-8-19(20)25-21(26)24-12-17(27)13-28-18-6-3-15(4-7-18)9-10-23/h3-8,11,14,17,27H,9,12-13H2,1-2H3,(H,24,25)/t17-/m0/s1" 
JVO InChIKey         InChI                1.06  SYDWHCIVWIRKCC-KRWDZBQOSA-N                                                                                                                                         
JVO SMILES_CANONICAL CACTVS               3.385 "CC(C)n1c(NC[C@H](O)COc2ccc(CC#N)cc2)nc3ccc(Cl)cc13"                                                                                                                
JVO SMILES           CACTVS               3.385 "CC(C)n1c(NC[CH](O)COc2ccc(CC#N)cc2)nc3ccc(Cl)cc13"                                                                                                                 
JVO SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)n1c2cc(ccc2nc1NC[C@@H](COc3ccc(cc3)CC#N)O)Cl"                                                                                                                 
JVO SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C)n1c2cc(ccc2nc1NCC(COc3ccc(cc3)CC#N)O)Cl"                                                                                                                      
# 
_pdbx_chem_comp_identifier.comp_id           JVO 
_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        "2-[4-[(2~{S})-3-[(6-chloranyl-1-propan-2-yl-benzimidazol-2-yl)amino]-2-oxidanyl-propoxy]phenyl]ethanenitrile" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
JVO "Create component" 2023-08-09 PDBE 
JVO "Initial release"  2024-01-17 RCSB 
# 
