data_4D9
#

_chem_comp.id                                   4D9
_chem_comp.name                                 "3-(1H-benzimidazol-2-yl)-N-(1-benzothiophen-2-ylcarbonyl)-D-alanine"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C19 H15 N3 O3 S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "(R)-2-[(Benzo[b]thiophene-2-carbonyl)-amino]-3-(1H-benzoimidazol-2-yl)-propionic acid"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2009-10-22
_chem_comp.pdbx_modified_date                   2020-06-17
_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                       365.406
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    4D9
_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       3KAF
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 PDBJ
#   #
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
4D9  C1    C1    C  0  1  Y  N  N  39.425  -18.644  13.843  -5.006   2.479  -0.437  C1    4D9   1  
4D9  C2    C2    C  0  1  Y  N  N  39.592  -20.011  13.663  -4.567   3.782  -0.551  C2    4D9   2  
4D9  C3    C3    C  0  1  Y  N  N  39.395  -20.572  12.398  -3.239   4.100  -0.306  C3    4D9   3  
4D9  C4    C4    C  0  1  Y  N  N  39.044  -19.819  11.272  -2.345   3.131   0.052  C4    4D9   4  
4D9  N5    N5    N  0  1  Y  N  N  38.848  -16.537  12.612  -4.222   0.121   0.135  N5    4D9   5  
4D9  C6    C6    C  0  1  Y  N  N  39.075  -17.842  12.762  -4.114   1.482  -0.069  C6    4D9   6  
4D9  C7    C7    C  0  1  Y  N  N  38.881  -18.458  11.431  -2.767   1.804   0.173  C7    4D9   7  
4D9  N8    N8    N  0  1  Y  N  N  38.554  -17.461  10.615  -2.137   0.647   0.502  N8    4D9   8  
4D9  C9    C9    C  0  1  Y  N  N  38.537  -16.302  11.327  -2.987  -0.337   0.473  C9    4D9   9  
4D9  C10   C10   C  0  1  N  N  N  38.223  -14.944  10.732  -2.654  -1.774   0.782  C10   4D9  10  
4D9  C11   C11   C  0  1  N  N  R  39.459  -14.065  10.447  -1.500  -2.234  -0.112  C11   4D9  11  
4D9  C12   C12   C  0  1  N  N  N  38.988  -12.768   9.820  -1.249  -3.703   0.109  C12   4D9  12  
4D9  N13   N13   N  0  1  N  N  N  40.563  -14.625   9.661  -0.292  -1.476   0.222  N13   4D9  13  
4D9  O14   O14   O  0  1  N  N  N  38.725  -12.723   8.582  -0.171  -4.079   0.505  O14   4D9  14  
4D9  O15   O15   O  0  1  N  N  N  38.870  -11.770  10.582  -2.222  -4.595  -0.134  O15   4D9  15  
4D9  C16   C16   C  0  1  N  N  N  40.811  -15.895   9.280   0.679  -1.316  -0.698  C16   4D9  16  
4D9  C17   C17   C  0  1  Y  N  N  40.564  -16.258   7.846   1.892  -0.555  -0.363  C17   4D9  17  
4D9  O18   O18   O  0  1  N  N  N  41.242  -16.745  10.049   0.552  -1.801  -1.807  O18   4D9  18  
4D9  C19   C19   C  0  1  Y  N  N  40.061  -15.457   6.799   2.910  -0.340  -1.202  C19   4D9  19  
4D9  S20   S20   S  0  1  Y  N  N  40.932  -17.919   7.354   2.198   0.201   1.191  S20   4D9  20  
4D9  C21   C21   C  0  1  Y  N  N  40.451  -17.643   5.751   3.758   0.805   0.646  C21   4D9  21  
4D9  C22   C22   C  0  1  Y  N  N  39.991  -16.232   5.581   3.975   0.414  -0.682  C22   4D9  22  
4D9  C23   C23   C  0  1  Y  N  N  39.544  -15.799   4.326   5.179   0.804  -1.315  C23   4D9  23  
4D9  C24   C24   C  0  1  Y  N  N  39.544  -16.720   3.273   6.103   1.542  -0.644  C24   4D9  24  
4D9  C25   C25   C  0  1  Y  N  N  39.987  -18.055   3.445   5.885   1.925   0.673  C25   4D9  25  
4D9  C26   C26   C  0  1  Y  N  N  40.455  -18.541   4.678   4.723   1.565   1.314  C26   4D9  26  
4D9  H1    H1    H  0  1  N  N  N  39.567  -18.205  14.820  -6.041   2.237  -0.629  H1    4D9  27  
4D9  H2    H2    H  0  1  N  N  N  39.873  -20.638  14.497  -5.262   4.559  -0.834  H2    4D9  28  
4D9  H3    H3    H  0  1  N  N  N  39.520  -21.639  12.284  -2.909   5.124  -0.399  H3    4D9  29  
4D9  H4    H4    H  0  1  N  N  N  38.905  -20.288  10.309  -1.313   3.389   0.239  H4    4D9  30  
4D9  H10   H10   H  0  1  N  N  N  37.700  -15.108   9.778  -2.361  -1.863   1.828  H10   4D9  31  
4D9  H10A  H10A  H  0  0  N  N  N  37.584  -14.404  11.446  -3.529  -2.398   0.596  H10A  4D9  32  
4D9  H11   H11   H  0  1  N  N  N  39.923  -13.941  11.437  -1.760  -2.063  -1.156  H11   4D9  33  
4D9  HN13  HN13  H  0  0  N  N  N  41.243  -13.957   9.358  -0.191  -1.089   1.106  HN13  4D9  34  
4D9  HO15  HO15  H  0  0  N  N  N  38.565  -11.023  10.081  -2.014  -5.526   0.022  HO15  4D9  35  
4D9  H19   H19   H  0  1  N  N  N  39.772  -14.421   6.893   2.914  -0.720  -2.213  H19   4D9  36  
4D9  H23   H23   H  0  1  N  N  N  39.209  -14.783   4.176   5.365   0.514  -2.338  H23   4D9  37  
4D9  H24   H24   H  0  1  N  N  N  39.196  -16.404   2.300   7.017   1.832  -1.140  H24   4D9  38  
4D9  H25   H25   H  0  1  N  N  N  39.964  -18.724   2.597   6.628   2.510   1.194  H25   4D9  39  
4D9  H26   H26   H  0  1  N  N  N  40.801  -19.558   4.792   4.558   1.866   2.338  H26   4D9  40  
4D9  HN5   HN5   H  0  1  N  N  N  38.901  -15.848  13.335  -5.028  -0.411   0.043  HN5   4D9  41  
#   #
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
4D9  C6   C1    DOUB  Y  N   1  
4D9  C2   C1    SING  Y  N   2  
4D9  C1   H1    SING  N  N   3  
4D9  C3   C2    DOUB  Y  N   4  
4D9  C2   H2    SING  N  N   5  
4D9  C4   C3    SING  Y  N   6  
4D9  C3   H3    SING  N  N   7  
4D9  C4   C7    DOUB  Y  N   8  
4D9  C4   H4    SING  N  N   9  
4D9  C9   N5    SING  Y  N  10  
4D9  N5   C6    SING  Y  N  11  
4D9  C7   C6    SING  Y  N  12  
4D9  N8   C7    SING  Y  N  13  
4D9  N8   C9    DOUB  Y  N  14  
4D9  C10  C9    SING  N  N  15  
4D9  C11  C10   SING  N  N  16  
4D9  C10  H10   SING  N  N  17  
4D9  C10  H10A  SING  N  N  18  
4D9  N13  C11   SING  N  N  19  
4D9  C12  C11   SING  N  N  20  
4D9  C11  H11   SING  N  N  21  
4D9  O14  C12   DOUB  N  N  22  
4D9  C12  O15   SING  N  N  23  
4D9  C16  N13   SING  N  N  24  
4D9  N13  HN13  SING  N  N  25  
4D9  O15  HO15  SING  N  N  26  
4D9  C17  C16   SING  N  N  27  
4D9  C16  O18   DOUB  N  N  28  
4D9  C19  C17   DOUB  Y  N  29  
4D9  S20  C17   SING  Y  N  30  
4D9  C22  C19   SING  Y  N  31  
4D9  C19  H19   SING  N  N  32  
4D9  C21  S20   SING  Y  N  33  
4D9  C26  C21   DOUB  Y  N  34  
4D9  C22  C21   SING  Y  N  35  
4D9  C23  C22   DOUB  Y  N  36  
4D9  C24  C23   SING  Y  N  37  
4D9  C23  H23   SING  N  N  38  
4D9  C24  C25   DOUB  Y  N  39  
4D9  C24  H24   SING  N  N  40  
4D9  C25  C26   SING  Y  N  41  
4D9  C25  H25   SING  N  N  42  
4D9  C26  H26   SING  N  N  43  
4D9  N5   HN5   SING  N  N  44  
#   #
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
4D9  SMILES            ACDLabs               11.02  "O=C(O)C(NC(=O)c2sc1ccccc1c2)Cc4nc3ccccc3n4"  
4D9  SMILES_CANONICAL  CACTVS                3.352  "OC(=O)[C@@H](Cc1[nH]c2ccccc2n1)NC(=O)c3sc4ccccc4c3"  
4D9  SMILES            CACTVS                3.352  "OC(=O)[CH](Cc1[nH]c2ccccc2n1)NC(=O)c3sc4ccccc4c3"  
4D9  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.0  "c1ccc2c(c1)cc(s2)C(=O)N[C@H](Cc3[nH]c4ccccc4n3)C(=O)O"  
4D9  SMILES            "OpenEye OEToolkits"  1.7.0  "c1ccc2c(c1)cc(s2)C(=O)NC(Cc3[nH]c4ccccc4n3)C(=O)O"  
4D9  InChI             InChI                 1.03   "InChI=1S/C19H15N3O3S/c23-18(16-9-11-5-1-4-8-15(11)26-16)22-14(19(24)25)10-17-20-12-6-2-3-7-13(12)21-17/h1-9,14H,10H2,(H,20,21)(H,22,23)(H,24,25)/t14-/m1/s1"  
4D9  InChIKey          InChI                 1.03   OEMQUBXYMQNIGH-CQSZACIVSA-N  
#   #
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
4D9  "SYSTEMATIC NAME"  ACDLabs               11.02  "3-(1H-benzimidazol-2-yl)-N-(1-benzothiophen-2-ylcarbonyl)-D-alanine"  
4D9  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.6.1  "(2R)-3-(1H-benzimidazol-2-yl)-2-(1-benzothiophen-2-ylcarbonylamino)propanoic 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
4D9  "Create component"      2009-10-22  PDBJ  
4D9  "Modify aromatic_flag"  2011-06-04  RCSB  
4D9  "Modify descriptor"     2011-06-04  RCSB  
4D9  "Modify synonyms"       2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     4D9
_pdbx_chem_comp_synonyms.name        "(R)-2-[(Benzo[b]thiophene-2-carbonyl)-amino]-3-(1H-benzoimidazol-2-yl)-propionic acid"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
