data_V3D
#

_chem_comp.id                                   V3D
_chem_comp.name                                 "(3S)-3-{[N-(4-methoxy-1H-indole-2-carbonyl)-L-leucyl]amino}-2-oxo-4-[(3S)-2-oxopyrrolidin-3-yl]butyl 2-cyanobenzoate"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C32 H35 N5 O7"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-06-19
_chem_comp.pdbx_modified_date                   2020-07-03
_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                       601.650
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    V3D
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  Y
_chem_comp.pdbx_ideal_coordinates_details       Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       6XHN
_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
V3D  C1   C1   C  0  1  N  N  N  13.209  21.513  27.692   11.271   0.590   0.132  C1   V3D   1  
V3D  O2   O1   O  0  1  N  N  N  12.955  20.131  27.395    9.853   0.698   0.277  O2   V3D   2  
V3D  C3   C2   C  0  1  Y  N  N  12.065  19.959  26.335    9.089  -0.061  -0.549  C3   V3D   3  
V3D  C4   C3   C  0  1  Y  N  N  11.553  20.998  25.527    9.684  -0.891  -1.478  C4   V3D   4  
V3D  C5   C4   C  0  1  Y  N  N  10.674  20.728  24.469    8.908  -1.670  -2.324  C5   V3D   5  
V3D  C6   C5   C  0  1  Y  N  N  10.259  19.418  24.196    7.533  -1.628  -2.254  C6   V3D   6  
V3D  C7   C6   C  0  1  Y  N  N  10.760  18.410  25.021    6.906  -0.800  -1.327  C7   V3D   7  
V3D  N8   N1   N  0  1  Y  N  N  10.535  17.051  24.974    5.586  -0.553  -1.030  N8   V3D   8  
V3D  C9   C7   C  0  1  Y  N  N  11.233  16.412  25.964    5.527   0.373  -0.005  C9   V3D   9  
V3D  C10  C8   C  0  1  Y  N  N  11.951  17.364  26.665    6.791   0.719   0.355  C10  V3D  10  
V3D  C11  C9   C  0  1  Y  N  N  11.667  18.635  26.069    7.687  -0.012  -0.460  C11  V3D  11  
V3D  C12  C10  C  0  1  N  N  N  11.120  14.991  26.141    4.295   0.899   0.599  C12  V3D  12  
V3D  O13  O2   O  0  1  N  N  N  10.421  14.319  25.394    4.359   1.714   1.499  O13  V3D  13  
V3D  N14  N2   N  0  1  N  N  N  11.790  14.476  27.213    3.094   0.477   0.155  N14  V3D  14  
V3D  C15  C11  C  0  1  N  N  S  11.693  13.051  27.508    1.866   1.002   0.757  C15  V3D  15  
V3D  C17  C12  C  0  1  N  N  N  12.720  12.624  28.543    1.489   2.321   0.080  C17  V3D  16  
V3D  C18  C13  C  0  1  N  N  N  14.144  12.687  28.021    2.563   3.370   0.374  C18  V3D  17  
V3D  C19  C14  C  0  1  N  N  N  14.463  11.539  27.089    2.252   4.651  -0.404  C19  V3D  18  
V3D  C20  C15  C  0  1  N  N  N  15.096  12.644  29.192    2.582   3.675   1.873  C20  V3D  19  
V3D  C21  C16  C  0  1  N  N  N  10.312  12.806  28.077    0.750   0.006   0.571  C21  V3D  20  
V3D  O22  O3   O  0  1  N  N  N   9.763  13.561  28.873    0.961  -1.039  -0.007  O22  V3D  21  
V3D  N23  N3   N  0  1  N  N  N   9.743  11.630  27.616   -0.481   0.276   1.047  N23  V3D  22  
V3D  C24  C17  C  0  1  N  N  S   8.437  11.204  28.110   -1.592  -0.638   0.768  C24  V3D  23  
V3D  C26  C18  C  0  1  N  N  N   7.447  10.942  26.983   -1.649  -1.717   1.851  C26  V3D  24  
V3D  C27  C19  C  0  1  N  N  S   7.041  12.265  26.354   -2.676  -2.781   1.457  C27  V3D  25  
V3D  C29  C20  C  0  1  N  N  N   6.159  13.125  27.307   -2.815  -3.839   2.576  C29  V3D  26  
V3D  C30  C21  C  0  1  N  N  N   4.979  13.641  26.486   -3.020  -5.134   1.761  C30  V3D  27  
V3D  N31  N4   N  0  1  N  N  N   4.995  12.813  25.294   -2.390  -4.882   0.460  N31  V3D  28  
V3D  C32  C22  C  0  1  N  N  N   6.107  11.997  25.190   -2.190  -3.568   0.261  C32  V3D  29  
V3D  O33  O4   O  0  1  N  N  N   6.346  11.230  24.276   -1.692  -3.084  -0.734  O33  V3D  30  
V3D  C34  C23  C  0  1  N  N  N   8.541   9.974  28.973   -2.886   0.133   0.758  C34  V3D  31  
V3D  O35  O5   O  0  1  N  N  N   7.557   9.299  29.256   -3.026   1.088   1.484  O35  V3D  32  
V3D  C36  C24  C  0  1  N  N  N   9.851   9.598  29.551   -4.006  -0.287  -0.159  C36  V3D  33  
V3D  H1   H1   H  0  1  N  N  N  13.915  21.584  28.533   11.577  -0.440   0.315  H1   V3D  34  
V3D  H2   H2   H  0  1  N  N  N  13.641  22.004  26.808   11.556   0.880  -0.879  H2   V3D  35  
V3D  H3   H3   H  0  1  N  N  N  12.265  22.009  27.963   11.760   1.247   0.851  H3   V3D  36  
V3D  H4   H4   H  0  1  N  N  N  11.844  22.019  25.728   10.761  -0.935  -1.546  H4   V3D  37  
V3D  H5   H5   H  0  1  N  N  N  10.312  21.540  23.856    9.386  -2.315  -3.046  H5   V3D  38  
V3D  H6   H6   H  0  1  N  N  N   9.582  19.198  23.384    6.940  -2.239  -2.919  H6   V3D  39  
V3D  H7   H7   H  0  1  N  N  N   9.944  16.595  24.309    4.823  -0.961  -1.468  H7   V3D  40  
V3D  H8   H8   H  0  1  N  N  N  12.604  17.183  27.506    7.063   1.422   1.128  H8   V3D  41  
V3D  H9   H9   H  0  1  N  N  N  12.344  15.073  27.793    3.043  -0.173  -0.563  H9   V3D  42  
V3D  H10  H10  H  0  1  N  N  N  11.826  12.459  26.591    2.027   1.173   1.821  H10  V3D  43  
V3D  H11  H11  H  0  1  N  N  N  12.636  13.288  29.416    1.415   2.169  -0.997  H11  V3D  44  
V3D  H12  H12  H  0  1  N  N  N  12.503  11.589  28.847    0.530   2.666   0.465  H12  V3D  45  
V3D  H13  H13  H  0  1  N  N  N  14.284  13.635  27.481    3.538   2.988   0.069  H13  V3D  46  
V3D  H14  H14  H  0  1  N  N  N  15.502  11.628  26.739    1.278   5.033  -0.099  H14  V3D  47  
V3D  H15  H15  H  0  1  N  N  N  14.337  10.586  27.624    3.018   5.398  -0.194  H15  V3D  48  
V3D  H16  H16  H  0  1  N  N  N  13.781  11.567  26.226    2.239   4.433  -1.472  H16  V3D  49  
V3D  H17  H17  H  0  1  N  N  N  14.873  13.475  29.877    2.804   2.763   2.427  H17  V3D  50  
V3D  H18  H18  H  0  1  N  N  N  14.979  11.689  29.725    3.347   4.422   2.082  H18  V3D  51  
V3D  H19  H19  H  0  1  N  N  N  16.130  12.737  28.828    1.608   4.058   2.178  H19  V3D  52  
V3D  H20  H20  H  0  1  N  N  N  10.228  11.072  26.943   -0.632   1.076   1.575  H20  V3D  53  
V3D  H21  H21  H  0  1  N  N  N   8.024  12.013  28.731   -1.440  -1.107  -0.204  H21  V3D  54  
V3D  H22  H22  H  0  1  N  N  N   6.556  10.438  27.386   -0.668  -2.180   1.955  H22  V3D  55  
V3D  H23  H23  H  0  1  N  N  N   7.917  10.302  26.222   -1.940  -1.265   2.799  H23  V3D  56  
V3D  H24  H24  H  0  1  N  N  N   7.924  12.834  26.029   -3.640  -2.319   1.247  H24  V3D  57  
V3D  H25  H25  H  0  1  N  N  N   5.796  12.509  28.143   -1.906  -3.895   3.176  H25  V3D  58  
V3D  H26  H26  H  0  1  N  N  N   6.743  13.970  27.701   -3.681  -3.631   3.204  H26  V3D  59  
V3D  H27  H27  H  0  1  N  N  N   5.116  14.701  26.228   -2.536  -5.974   2.259  H27  V3D  60  
V3D  H28  H28  H  0  1  N  N  N   4.035  13.516  27.037   -4.084  -5.335   1.633  H28  V3D  61  
V3D  H29  H29  H  0  1  N  N  N   4.267  12.831  24.609   -2.149  -5.575  -0.175  H29  V3D  62  
V3D  H30  H30  H  0  1  N  N  N  10.650  10.347  29.658   -3.680  -0.199  -1.195  H30  V3D  63  
V3D  H31  H31  H  0  1  N  N  N   9.909   8.879  30.381   -4.279  -1.321   0.050  H31  V3D  64  
V3D  O1   O6   O  0  1  N  N  N       ?       ?       ?   -5.158   0.571   0.059  O1   V3D  65  
V3D  C8   C25  C  0  1  N  N  N       ?       ?       ?   -6.252   0.326  -0.687  C8   V3D  66  
V3D  C13  C26  C  0  1  Y  N  N       ?       ?       ?   -7.461   1.158  -0.519  C13  V3D  67  
V3D  C14  C27  C  0  1  Y  N  N       ?       ?       ?   -7.474   2.197   0.410  C14  V3D  68  
V3D  C16  C28  C  0  1  Y  N  N       ?       ?       ?   -8.607   2.972   0.563  C16  V3D  69  
V3D  C22  C29  C  0  1  Y  N  N       ?       ?       ?   -9.734   2.725  -0.202  C22  V3D  70  
V3D  C23  C30  C  0  1  Y  N  N       ?       ?       ?   -9.741   1.700  -1.128  C23  V3D  71  
V3D  C25  C31  C  0  1  Y  N  N       ?       ?       ?   -8.606   0.911  -1.301  C25  V3D  72  
V3D  O3   O7   O  0  1  N  N  N       ?       ?       ?   -6.245  -0.578  -1.498  O3   V3D  73  
V3D  C2   C32  C  0  1  N  N  N       ?       ?       ?   -8.608  -0.153  -2.260  C2   V3D  74  
V3D  N1   N5   N  0  1  N  N  N       ?       ?       ?   -8.609  -0.997  -3.021  N1   V3D  75  
V3D  H32  H32  H  0  1  N  N  N       ?       ?       ?   -6.599   2.395   1.011  H32  V3D  76  
V3D  H33  H33  H  0  1  N  N  N       ?       ?       ?   -8.614   3.776   1.284  H33  V3D  77  
V3D  H34  H34  H  0  1  N  N  N       ?       ?       ?  -10.615   3.337  -0.073  H34  V3D  78  
V3D  H35  H35  H  0  1  N  N  N       ?       ?       ?  -10.624   1.514  -1.721  H35  V3D  79  
#   #
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
V3D  C6   C5   DOUB  Y  N   1  
V3D  C6   C7   SING  Y  N   2  
V3D  O33  C32  DOUB  N  N   3  
V3D  C5   C4   SING  Y  N   4  
V3D  N8   C7   SING  Y  N   5  
V3D  N8   C9   SING  Y  N   6  
V3D  C7   C11  DOUB  Y  N   7  
V3D  C32  N31  SING  N  N   8  
V3D  C32  C27  SING  N  N   9  
V3D  N31  C30  SING  N  N  10  
V3D  O13  C12  DOUB  N  N  11  
V3D  C4   C3   DOUB  Y  N  12  
V3D  C9   C12  SING  N  N  13  
V3D  C9   C10  DOUB  Y  N  14  
V3D  C11  C3   SING  Y  N  15  
V3D  C11  C10  SING  Y  N  16  
V3D  C12  N14  SING  N  N  17  
V3D  C3   O2   SING  N  N  18  
V3D  C27  C26  SING  N  N  19  
V3D  C27  C29  SING  N  N  20  
V3D  C30  C29  SING  N  N  21  
V3D  C26  C24  SING  N  N  22  
V3D  C19  C18  SING  N  N  23  
V3D  N14  C15  SING  N  N  24  
V3D  O2   C1   SING  N  N  25  
V3D  C15  C21  SING  N  N  26  
V3D  C15  C17  SING  N  N  27  
V3D  N23  C21  SING  N  N  28  
V3D  N23  C24  SING  N  N  29  
V3D  C18  C17  SING  N  N  30  
V3D  C18  C20  SING  N  N  31  
V3D  C21  O22  DOUB  N  N  32  
V3D  C24  C34  SING  N  N  33  
V3D  C34  O35  DOUB  N  N  34  
V3D  C34  C36  SING  N  N  35  
V3D  C1   H1   SING  N  N  36  
V3D  C1   H2   SING  N  N  37  
V3D  C1   H3   SING  N  N  38  
V3D  C4   H4   SING  N  N  39  
V3D  C5   H5   SING  N  N  40  
V3D  C6   H6   SING  N  N  41  
V3D  N8   H7   SING  N  N  42  
V3D  C10  H8   SING  N  N  43  
V3D  N14  H9   SING  N  N  44  
V3D  C15  H10  SING  N  N  45  
V3D  C17  H11  SING  N  N  46  
V3D  C17  H12  SING  N  N  47  
V3D  C18  H13  SING  N  N  48  
V3D  C19  H14  SING  N  N  49  
V3D  C19  H15  SING  N  N  50  
V3D  C19  H16  SING  N  N  51  
V3D  C20  H17  SING  N  N  52  
V3D  C20  H18  SING  N  N  53  
V3D  C20  H19  SING  N  N  54  
V3D  N23  H20  SING  N  N  55  
V3D  C24  H21  SING  N  N  56  
V3D  C26  H22  SING  N  N  57  
V3D  C26  H23  SING  N  N  58  
V3D  C27  H24  SING  N  N  59  
V3D  C29  H25  SING  N  N  60  
V3D  C29  H26  SING  N  N  61  
V3D  C30  H27  SING  N  N  62  
V3D  C30  H28  SING  N  N  63  
V3D  N31  H29  SING  N  N  64  
V3D  C36  H30  SING  N  N  65  
V3D  C36  H31  SING  N  N  66  
V3D  C36  O1   SING  N  N  67  
V3D  O1   C8   SING  N  N  68  
V3D  C8   C13  SING  N  N  69  
V3D  C13  C14  SING  Y  N  70  
V3D  C14  C16  DOUB  Y  N  71  
V3D  C16  C22  SING  Y  N  72  
V3D  C22  C23  DOUB  Y  N  73  
V3D  C23  C25  SING  Y  N  74  
V3D  C25  C13  DOUB  Y  N  75  
V3D  C8   O3   DOUB  N  N  76  
V3D  C25  C2   SING  N  N  77  
V3D  C2   N1   TRIP  N  N  78  
V3D  C14  H32  SING  N  N  79  
V3D  C16  H33  SING  N  N  80  
V3D  C22  H34  SING  N  N  81  
V3D  C23  H35  SING  N  N  82  
#   #
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
V3D  SMILES            ACDLabs               12.01  "COc1cccc2c1cc(n2)C(NC(C(=O)NC(C(=O)COC(c3ccccc3C#N)=O)CC4CCNC4=O)CC(C)C)=O"  
V3D  InChI             InChI                 1.03   "InChI=1S/C32H35N5O7/c1-18(2)13-25(37-31(41)26-15-22-23(35-26)9-6-10-28(22)43-3)30(40)36-24(14-19-11-12-34-29(19)39)27(38)17-44-32(42)21-8-5-4-7-20(21)16-33/h4-10,15,18-19,24-25,35H,11-14,17H2,1-3H3,(H,34,39)(H,36,40)(H,37,41)/t19-,24-,25-/m0/s1"  
V3D  InChIKey          InChI                 1.03   QDDDUZBEUKGROG-LQGLAIQGSA-N  
V3D  SMILES_CANONICAL  CACTVS                3.385  "COc1cccc2[nH]c(cc12)C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](C[C@@H]3CCNC3=O)C(=O)COC(=O)c4ccccc4C#N"  
V3D  SMILES            CACTVS                3.385  "COc1cccc2[nH]c(cc12)C(=O)N[CH](CC(C)C)C(=O)N[CH](C[CH]3CCNC3=O)C(=O)COC(=O)c4ccccc4C#N"  
V3D  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CC(C)C[C@@H](C(=O)N[C@@H](C[C@@H]1CCNC1=O)C(=O)COC(=O)c2ccccc2C#N)NC(=O)c3cc4c([nH]3)cccc4OC"  
V3D  SMILES            "OpenEye OEToolkits"  2.0.7  "CC(C)CC(C(=O)NC(CC1CCNC1=O)C(=O)COC(=O)c2ccccc2C#N)NC(=O)c3cc4c([nH]3)cccc4OC"  
#   #
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
V3D  "SYSTEMATIC NAME"  ACDLabs               12.01  "(3S)-3-{[N-(4-methoxy-1H-indole-2-carbonyl)-L-leucyl]amino}-2-oxo-4-[(3S)-2-oxopyrrolidin-3-yl]butyl 2-cyanobenzoate"  
V3D  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "[(3~{S})-3-[[(2~{S})-2-[(4-methoxy-1~{H}-indol-2-yl)carbonylamino]-4-methyl-pentanoyl]amino]-2-oxidanylidene-4-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]butyl] 2-cyanobenzoate"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
V3D  "Create component"  2020-06-19  RCSB  
V3D  "Initial release"   2020-07-08  RCSB  
##
