data_5Z4
#

_chem_comp.id                                   5Z4
_chem_comp.name                                 "ethyl 2-(2-(4-azido-N-((2-(1,5-dimethyl-6-oxo-1,6-dihydropyridin-3-yl)-1-((tetrahydro-2H-pyran-4-yl)methyl)-1H-benzo[d]imidazol-6-yl)methyl)-2,3,5,6-tetrafluorobenzamido)acetamido)acetate"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C34 H35 F4 N8 O6"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   1
_chem_comp.pdbx_initial_date                    2021-07-20
_chem_comp.pdbx_modified_date                   2021-10-01
_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                       727.685
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    5Z4
_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       7P6V
_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.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
5Z4  N1   N1   N  0  1  N  N  N  22.422   -7.062   -4.901  -1.571  -0.993   1.749  N1   5Z4   1  
5Z4  N3   N2   N  0  1  N  N  N  14.820  -12.581   -8.964   7.929  -0.708  -1.437  N3   5Z4   2  
5Z4  C4   C1   C  0  1  N  N  N  24.564   -7.003   -6.126  -2.962   0.969   1.426  C4   5Z4   3  
5Z4  C5   C2   C  0  1  N  N  N  23.331   -7.806   -5.750  -1.812   0.162   0.881  C5   5Z4   4  
5Z4  C6   C3   C  0  1  N  N  N  21.364   -6.323   -5.599  -0.644  -0.879   2.878  C6   5Z4   5  
5Z4  C7   C4   C  0  1  Y  N  N  20.486   -7.173   -6.489   0.745  -1.254   2.428  C7   5Z4   6  
5Z4  C8   C5   C  0  1  Y  N  N  19.910   -6.624   -7.636   1.162  -2.574   2.509  C8   5Z4   7  
5Z4  C10  C6   C  0  1  Y  N  N  18.569   -8.592   -7.958   3.298  -1.961   1.602  C10  5Z4   8  
5Z4  C13  C7   C  0  1  N  N  N  17.154  -13.011   -7.623   7.112   0.472   0.920  C13  5Z4   9  
5Z4  C15  C8   C  0  1  N  N  N  16.915  -15.494   -7.768   9.237   1.752   1.094  C15  5Z4  10  
5Z4  C17  C9   C  0  1  N  N  N  13.497  -12.348   -9.543   8.375  -1.333  -2.684  C17  5Z4  11  
5Z4  C20  C10  C  0  1  N  N  N  18.128  -10.597   -4.233   3.610   1.780  -0.738  C20  5Z4  12  
5Z4  C21  C11  C  0  1  N  N  N  16.623  -10.421   -4.383   2.160   1.362  -0.999  C21  5Z4  13  
5Z4  C22  C12  C  0  1  N  N  N  16.019   -9.893   -3.104   1.796   1.688  -2.450  C22  5Z4  14  
5Z4  C24  C13  C  0  1  N  N  N  18.406  -11.442   -2.998   3.765   3.271  -1.056  C24  5Z4  15  
5Z4  C26  C14  C  0  1  Y  N  N  20.133   -8.469   -6.117   1.589  -0.282   1.933  C26  5Z4  16  
5Z4  C28  C15  C  0  1  Y  N  N  21.716   -6.240   -2.696  -3.143  -2.270   0.380  C28  5Z4  17  
5Z4  F3   F1   F  0  1  N  N  N  20.168   -8.026   -2.598  -1.346  -2.962  -1.017  F3   5Z4  18  
5Z4  C33  C16  C  0  1  Y  N  N  20.534   -6.789   -2.217  -2.659  -2.681  -0.869  C33  5Z4  19  
5Z4  C32  C17  C  0  1  Y  N  N  19.712   -6.102   -1.351  -3.499  -2.802  -1.938  C32  5Z4  20  
5Z4  F2   F2   F  0  1  N  N  N  18.583   -6.696   -0.925  -3.026  -3.200  -3.139  F2   5Z4  21  
5Z4  C31  C18  C  0  1  Y  N  N  20.026   -4.819   -0.911  -4.924  -2.495  -1.766  C31  5Z4  22  
5Z4  N5   N3   N  0  1  N  N  N  19.116   -4.161   -0.028  -5.765  -2.602  -2.780  N5   5Z4  23  
5Z4  N6   N4   N  1  1  N  N  N  19.567   -3.413    0.912  -6.853  -2.363  -2.634  N6   5Z4  24  
5Z4  N7   N5   N  0  1  N  N  N  19.727   -2.712    1.802  -7.942  -2.125  -2.488  N7   5Z4  25  
5Z4  C30  C19  C  0  1  Y  N  N  21.209   -4.269   -1.393  -5.393  -2.067  -0.444  C30  5Z4  26  
5Z4  F1   F3   F  0  1  N  N  N  21.599   -3.048   -0.983  -6.697  -1.774  -0.243  F1   5Z4  27  
5Z4  C29  C20  C  0  1  Y  N  N  22.018   -4.955   -2.269  -4.497  -1.969   0.581  C29  5Z4  28  
5Z4  F    F4   F  0  1  N  N  N  23.120   -4.340   -2.730  -4.919  -1.576   1.802  F    5Z4  29  
5Z4  C27  C21  C  0  1  N  N  N  22.641   -7.051   -3.569  -2.205  -2.158   1.513  C27  5Z4  30  
5Z4  O5   O1   O  0  1  N  N  N  23.566   -7.646   -3.047  -2.005  -3.116   2.234  O5   5Z4  31  
5Z4  O2   O2   O  0  1  N  N  N  24.544   -5.773   -6.118  -3.525   0.614   2.440  O2   5Z4  32  
5Z4  N    N6   N  0  1  N  N  N  25.641   -7.717   -6.443  -3.365   2.085   0.786  N    5Z4  33  
5Z4  C3   C22  C  0  1  N  N  N  26.570   -7.274   -7.460  -4.484   2.869   1.316  C3   5Z4  34  
5Z4  C2   C23  C  0  1  N  N  N  27.439   -6.139   -6.986  -4.732   4.057   0.423  C2   5Z4  35  
5Z4  O1   O3   O  0  1  N  N  N  27.587   -5.807   -5.840  -4.045   4.231  -0.556  O1   5Z4  36  
5Z4  O    O4   O  0  1  N  N  N  28.033   -5.542   -8.023  -5.716   4.922   0.715  O    5Z4  37  
5Z4  C1   C24  C  0  1  N  N  N  27.902   -4.089   -8.111  -5.898   6.043  -0.190  C1   5Z4  38  
5Z4  C    C25  C  0  1  N  N  N  27.511   -3.736   -9.494  -7.056   6.913   0.302  C    5Z4  39  
5Z4  C25  C26  C  0  1  Y  N  N  19.180   -9.161   -6.851   2.868  -0.625   1.518  C25  5Z4  40  
5Z4  C9   C27  C  0  1  Y  N  N  18.955   -7.316   -8.370   2.425  -2.935   2.097  C9   5Z4  41  
5Z4  N4   N7   N  0  1  Y  N  N  18.544  -10.381   -6.658   3.931   0.091   1.001  N4   5Z4  42  
5Z4  C19  C28  C  0  1  N  N  N  18.736  -11.216   -5.467   3.961   1.530   0.730  C19  5Z4  43  
5Z4  C23  C29  C  0  1  N  N  N  17.717  -10.847   -1.795   3.339   3.523  -2.504  C23  5Z4  44  
5Z4  O4   O5   O  0  1  N  N  N  16.305  -10.750   -1.996   1.991   3.083  -2.687  O4   5Z4  45  
5Z4  C11  C30  C  0  1  Y  N  N  17.572  -10.470   -7.631   4.952  -0.797   0.789  C11  5Z4  46  
5Z4  N2   N8   N  0  1  Y  N  N  17.557   -9.424   -8.438   4.574  -2.001   1.145  N2   5Z4  47  
5Z4  C12  C31  C  0  1  N  N  N  16.756  -11.673   -7.930   6.280  -0.450   0.242  C12  5Z4  48  
5Z4  C18  C32  C  0  1  N  N  N  15.626  -11.523   -8.662   6.717  -1.022  -0.933  C18  5Z4  49  
5Z4  C16  C33  C  0  1  N  N  N  15.162  -13.904   -8.648   8.735   0.166  -0.808  C16  5Z4  50  
5Z4  O3   O6   O  0  1  N  N  N  14.386  -14.823   -8.898   9.826   0.433  -1.284  O3   5Z4  51  
5Z4  C14  C34  C  0  1  N  N  N  16.425  -14.091   -7.979   8.330   0.774   0.394  C14  5Z4  52  
5Z4  H1   H1   H  0  1  N  N  N  22.801   -8.090   -6.671  -0.917   0.784   0.845  H1   5Z4  53  
5Z4  H2   H2   H  0  1  N  N  N  23.650   -8.713   -5.216  -2.054  -0.183  -0.124  H2   5Z4  54  
5Z4  H3   H3   H  0  1  N  N  N  21.839   -5.550   -6.222  -0.642   0.147   3.245  H3   5Z4  55  
5Z4  H4   H4   H  0  1  N  N  N  20.725   -5.843   -4.843  -0.960  -1.550   3.677  H4   5Z4  56  
5Z4  H5   H5   H  0  1  N  N  N  20.214   -5.639   -7.960   0.491  -3.325   2.898  H5   5Z4  57  
5Z4  H6   H6   H  0  1  N  N  N  18.077  -13.165   -7.083   6.785   0.929   1.842  H6   5Z4  58  
5Z4  H7   H7   H  0  1  N  N  N  17.884  -15.470   -7.248  10.160   1.863   0.525  H7   5Z4  59  
5Z4  H8   H8   H  0  1  N  N  N  16.186  -16.049   -7.159   8.740   2.719   1.171  H8   5Z4  60  
5Z4  H9   H9   H  0  1  N  N  N  17.033  -15.991   -8.742   9.469   1.382   2.093  H9   5Z4  61  
5Z4  H10  H10  H  0  1  N  N  N  12.997  -13.312   -9.717   8.064  -0.720  -3.530  H10  5Z4  62  
5Z4  H11  H11  H  0  1  N  N  N  12.895  -11.743   -8.849   9.461  -1.420  -2.679  H11  5Z4  63  
5Z4  H12  H12  H  0  1  N  N  N  13.604  -11.813  -10.498   7.932  -2.325  -2.773  H12  5Z4  64  
5Z4  H13  H13  H  0  1  N  N  N  18.579   -9.605   -4.082   4.277   1.201  -1.376  H13  5Z4  65  
5Z4  H14  H14  H  0  1  N  N  N  16.422   -9.710   -5.198   2.054   0.290  -0.829  H14  5Z4  66  
5Z4  H15  H15  H  0  1  N  N  N  16.168  -11.393   -4.623   1.497   1.906  -0.326  H15  5Z4  67  
5Z4  H16  H16  H  0  1  N  N  N  16.432   -8.894   -2.899   2.432   1.112  -3.122  H16  5Z4  68  
5Z4  H17  H17  H  0  1  N  N  N  14.928   -9.820   -3.227   0.752   1.431  -2.629  H17  5Z4  69  
5Z4  H18  H18  H  0  1  N  N  N  18.031  -12.463   -3.164   3.134   3.853  -0.384  H18  5Z4  70  
5Z4  H19  H19  H  0  1  N  N  N  19.490  -11.475   -2.817   4.806   3.565  -0.926  H19  5Z4  71  
5Z4  H20  H20  H  0  1  N  N  N  20.599   -8.933   -5.261   1.256   0.743   1.869  H20  5Z4  72  
5Z4  H21  H21  H  0  1  N  N  N  18.862   -2.418    2.208  -8.559  -2.823  -2.219  H21  5Z4  73  
5Z4  H22  H22  H  0  1  N  N  N  25.812   -8.580   -5.967  -2.915   2.369  -0.025  H22  5Z4  74  
5Z4  H23  H23  H  0  1  N  N  N  25.999   -6.939   -8.339  -5.379   2.248   1.352  H23  5Z4  75  
5Z4  H24  H24  H  0  1  N  N  N  27.215   -8.119   -7.742  -4.241   3.214   2.321  H24  5Z4  76  
5Z4  H25  H25  H  0  1  N  N  N  28.863   -3.614   -7.864  -4.985   6.638  -0.220  H25  5Z4  77  
5Z4  H26  H26  H  0  1  N  N  N  27.131   -3.743   -7.407  -6.122   5.671  -1.190  H26  5Z4  78  
5Z4  H27  H27  H  0  1  N  N  N  27.408   -2.644   -9.579  -6.832   7.285   1.301  H27  5Z4  79  
5Z4  H28  H28  H  0  1  N  N  N  28.284   -4.087  -10.194  -7.193   7.754  -0.377  H28  5Z4  80  
5Z4  H29  H29  H  0  1  N  N  N  26.551   -4.215   -9.737  -7.970   6.318   0.332  H29  5Z4  81  
5Z4  H30  H30  H  0  1  N  N  N  18.516   -6.871   -9.251   2.745  -3.964   2.167  H30  5Z4  82  
5Z4  H31  H31  H  0  1  N  N  N  18.265  -12.195   -5.641   4.958   1.918   0.936  H31  5Z4  83  
5Z4  H32  H32  H  0  1  N  N  N  19.815  -11.352   -5.300   3.235   2.035   1.368  H32  5Z4  84  
5Z4  H33  H33  H  0  1  N  N  N  17.911  -11.485   -0.920   3.406   4.589  -2.723  H33  5Z4  85  
5Z4  H34  H34  H  0  1  N  N  N  18.122   -9.841   -1.612   3.995   2.972  -3.178  H34  5Z4  86  
5Z4  H35  H35  H  0  1  N  N  N  15.356  -10.539   -9.016   6.086  -1.726  -1.455  H35  5Z4  87  
#   #
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
5Z4  C17  N3   SING  N  N   1  
5Z4  C    C1   SING  N  N   2  
5Z4  N3   C18  SING  N  N   3  
5Z4  N3   C16  SING  N  N   4  
5Z4  O3   C16  DOUB  N  N   5  
5Z4  C18  C12  DOUB  N  N   6  
5Z4  C16  C14  SING  N  N   7  
5Z4  N2   C10  SING  Y  N   8  
5Z4  N2   C11  DOUB  Y  N   9  
5Z4  C9   C10  DOUB  Y  N  10  
5Z4  C9   C8   SING  Y  N  11  
5Z4  C1   O    SING  N  N  12  
5Z4  O    C2   SING  N  N  13  
5Z4  C14  C15  SING  N  N  14  
5Z4  C14  C13  DOUB  N  N  15  
5Z4  C10  C25  SING  Y  N  16  
5Z4  C12  C11  SING  N  N  17  
5Z4  C12  C13  SING  N  N  18  
5Z4  C8   C7   DOUB  Y  N  19  
5Z4  C11  N4   SING  Y  N  20  
5Z4  C3   C2   SING  N  N  21  
5Z4  C3   N    SING  N  N  22  
5Z4  C2   O1   DOUB  N  N  23  
5Z4  C25  N4   SING  Y  N  24  
5Z4  C25  C26  DOUB  Y  N  25  
5Z4  N4   C19  SING  N  N  26  
5Z4  C7   C26  SING  Y  N  27  
5Z4  C7   C6   SING  N  N  28  
5Z4  N    C4   SING  N  N  29  
5Z4  C4   O2   DOUB  N  N  30  
5Z4  C4   C5   SING  N  N  31  
5Z4  C5   N1   SING  N  N  32  
5Z4  C6   N1   SING  N  N  33  
5Z4  C19  C20  SING  N  N  34  
5Z4  N1   C27  SING  N  N  35  
5Z4  C21  C20  SING  N  N  36  
5Z4  C21  C22  SING  N  N  37  
5Z4  C20  C24  SING  N  N  38  
5Z4  C27  O5   DOUB  N  N  39  
5Z4  C27  C28  SING  N  N  40  
5Z4  C22  O4   SING  N  N  41  
5Z4  C24  C23  SING  N  N  42  
5Z4  F    C29  SING  N  N  43  
5Z4  C28  C29  DOUB  Y  N  44  
5Z4  C28  C33  SING  Y  N  45  
5Z4  F3   C33  SING  N  N  46  
5Z4  C29  C30  SING  Y  N  47  
5Z4  C33  C32  DOUB  Y  N  48  
5Z4  O4   C23  SING  N  N  49  
5Z4  C30  F1   SING  N  N  50  
5Z4  C30  C31  DOUB  Y  N  51  
5Z4  C32  F2   SING  N  N  52  
5Z4  C32  C31  SING  Y  N  53  
5Z4  C31  N5   SING  N  N  54  
5Z4  N5   N6   DOUB  N  N  55  
5Z4  N6   N7   DOUB  N  N  56  
5Z4  C5   H1   SING  N  N  57  
5Z4  C5   H2   SING  N  N  58  
5Z4  C6   H3   SING  N  N  59  
5Z4  C6   H4   SING  N  N  60  
5Z4  C8   H5   SING  N  N  61  
5Z4  C13  H6   SING  N  N  62  
5Z4  C15  H7   SING  N  N  63  
5Z4  C15  H8   SING  N  N  64  
5Z4  C15  H9   SING  N  N  65  
5Z4  C17  H10  SING  N  N  66  
5Z4  C17  H11  SING  N  N  67  
5Z4  C17  H12  SING  N  N  68  
5Z4  C20  H13  SING  N  N  69  
5Z4  C21  H14  SING  N  N  70  
5Z4  C21  H15  SING  N  N  71  
5Z4  C22  H16  SING  N  N  72  
5Z4  C22  H17  SING  N  N  73  
5Z4  C24  H18  SING  N  N  74  
5Z4  C24  H19  SING  N  N  75  
5Z4  C26  H20  SING  N  N  76  
5Z4  N7   H21  SING  N  N  77  
5Z4  N    H22  SING  N  N  78  
5Z4  C3   H23  SING  N  N  79  
5Z4  C3   H24  SING  N  N  80  
5Z4  C1   H25  SING  N  N  81  
5Z4  C1   H26  SING  N  N  82  
5Z4  C    H27  SING  N  N  83  
5Z4  C    H28  SING  N  N  84  
5Z4  C    H29  SING  N  N  85  
5Z4  C9   H30  SING  N  N  86  
5Z4  C19  H31  SING  N  N  87  
5Z4  C19  H32  SING  N  N  88  
5Z4  C23  H33  SING  N  N  89  
5Z4  C23  H34  SING  N  N  90  
5Z4  C18  H35  SING  N  N  91  
#   #
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
5Z4  InChI             InChI                 1.03   "InChI=1S/C34H34F4N8O6/c1-4-52-25(48)13-40-24(47)17-45(34(50)26-27(35)29(37)31(42-43-39)30(38)28(26)36)14-20-5-6-22-23(12-20)46(15-19-7-9-51-10-8-19)32(41-22)21-11-18(2)33(49)44(3)16-21/h5-6,11-12,16,19,39H,4,7-10,13-15,17H2,1-3H3/p+1"  
5Z4  InChIKey          InChI                 1.03   GVABLHCCYXRMQO-UHFFFAOYSA-O  
5Z4  SMILES_CANONICAL  CACTVS                3.385  "CCOC(=O)CNC(=O)CN(Cc1ccc2nc(n(CC3CCOCC3)c2c1)C4=CN(C)C(=O)C(=C4)C)C(=O)c5c(F)c(F)c(N=[N+]=N)c(F)c5F"  
5Z4  SMILES            CACTVS                3.385  "CCOC(=O)CNC(=O)CN(Cc1ccc2nc(n(CC3CCOCC3)c2c1)C4=CN(C)C(=O)C(=C4)C)C(=O)c5c(F)c(F)c(N=[N+]=N)c(F)c5F"  
5Z4  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CCOC(=O)CNC(=O)CN(Cc1ccc2c(c1)n(c(n2)C3=CN(C(=O)C(=C3)C)C)CC4CCOCC4)C(=O)c5c(c(c(c(c5F)F)N=[N+]=N)F)F"  
5Z4  SMILES            "OpenEye OEToolkits"  2.0.7  "CCOC(=O)CNC(=O)CN(Cc1ccc2c(c1)n(c(n2)C3=CN(C(=O)C(=C3)C)C)CC4CCOCC4)C(=O)c5c(c(c(c(c5F)F)N=[N+]=N)F)F"  
#
_pdbx_chem_comp_identifier.comp_id          5Z4
_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       "azanylidene-[4-[[2-(1,5-dimethyl-6-oxidanylidene-pyridin-3-yl)-3-(oxan-4-ylmethyl)benzimidazol-5-yl]methyl-[2-[(2-ethoxy-2-oxidanylidene-ethyl)amino]-2-oxidanylidene-ethyl]carbamoyl]-2,3,5,6-tetrakis(fluoranyl)phenyl]imino-azanium"
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
5Z4  "Create component"  2021-07-20  PDBE  
5Z4  "Initial release"   2021-10-06  RCSB  
##
