data_VR4
#

_chem_comp.id                                   VR4
_chem_comp.name                                 "N-{(2S,3R)-4-(benzylamino)-3-hydroxy-4-oxo-1-[(3S)-2-oxopyrrolidin-3-yl]butan-2-yl}-N~2~-[(benzyloxy)carbonyl]-L-leucinamide"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C29 H38 N4 O6"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "			 GC376 alpha-ketoamide analog (bound form)"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-09-09
_chem_comp.pdbx_modified_date                   2021-01-08
_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                       538.635
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    VR4
_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       7K0H
_chem_comp.pdbx_subcomponent_list               "P6S LEU UZ4 ABN"
_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
VR4  C33  C23  C  0  1  N  N  N  20.216  23.445  -3.567  -6.098   0.298  -0.632  C21   P6S   1  
VR4  C34  C24  C  0  1  Y  N  N  20.472  24.917  -3.316  -7.137   0.236   0.458  C22   P6S   2  
VR4  C36  C26  C  0  1  Y  N  N  21.660  26.671  -2.096  -8.603   1.346   1.991  C24   P6S   3  
VR4  C38  C28  C  0  1  Y  N  N  20.030  27.259  -3.738  -8.534  -1.046   1.920  C26   P6S   4  
VR4  C02  C1   C  0  1  N  N  N  20.450  21.403  -2.364  -3.726   0.378  -0.881  C19   P6S   5  
VR4  C35  C25  C  0  1  Y  N  N  21.415  25.312  -2.346  -7.650   1.403   0.991  C23   P6S   6  
VR4  C37  C27  C  0  1  Y  N  N  20.961  27.647  -2.796  -9.043   0.121   2.458  C25   P6S   7  
VR4  C39  C29  C  0  1  Y  N  N  19.788  25.913  -3.990  -7.581  -0.989   0.920  C27   P6S   8  
VR4  O32  O6   O  0  1  N  N  N  20.669  22.752  -2.435  -4.774   0.322  -0.038  O20   P6S   9  
VR4  O01  O1   O  0  1  N  N  N  19.719  20.813  -3.132  -3.913   0.406  -2.082  O28   P6S  10  
VR4  N03  N1   N  0  1  N  N  N  21.107  20.845  -1.335  -2.470   0.403  -0.395  N     LEU  11  
VR4  C04  C2   C  0  1  N  N  S  21.159  19.423  -1.160  -1.328   0.353  -1.311  CA    LEU  12  
VR4  C05  C3   C  0  1  N  N  N  19.809  18.983  -0.599  -0.157  -0.296  -0.620  C     LEU  13  
VR4  O27  O5   O  0  1  N  N  N  19.262  19.643   0.292  -0.172  -0.449   0.583  O     LEU  14  
VR4  C28  C19  C  0  1  N  N  N  22.250  19.014  -0.186  -0.948   1.774  -1.732  CB    LEU  15  
VR4  C29  C20  C  0  1  N  N  N  23.620  19.161  -0.736   0.153   1.715  -2.792  CG    LEU  16  
VR4  C30  C21  C  0  1  N  N  N  24.648  19.070   0.408  -0.407   1.102  -4.076  CD1   LEU  17  
VR4  C31  C22  C  0  1  N  N  N  23.890  18.072  -1.718   0.659   3.130  -3.081  CD2   LEU  18  
VR4  N06  N2   N  0  1  N  N  N  19.205  17.823  -1.048   0.907  -0.706  -1.338  N19   UZ4  19  
VR4  C07  C4   C  0  1  N  N  S  18.059  17.268  -0.476   1.999  -1.431  -0.683  C20   UZ4  20  
VR4  C08  C5   C  0  1  N  N  N  16.957  17.006  -1.538   1.693  -2.930  -0.691  C21   UZ4  21  
VR4  C09  C6   C  0  1  N  N  S  16.361  18.306  -2.045   2.762  -3.673   0.113  C22   UZ4  22  
VR4  C13  C9   C  0  1  N  N  N  15.553  19.131  -0.992   2.568  -5.202  -0.012  C23   UZ4  23  
VR4  C12  C8   C  0  1  N  N  N  14.300  19.656  -1.715   2.954  -5.685   1.404  C24   UZ4  24  
VR4  N11  N3   N  0  1  N  N  N  14.208  18.812  -2.900   2.706  -4.542   2.289  N25   UZ4  25  
VR4  C10  C7   C  0  1  N  N  N  15.336  18.043  -3.112   2.599  -3.398   1.592  C26   UZ4  26  
VR4  O14  O2   O  0  1  N  N  N  15.447  17.270  -4.073   2.401  -2.304   2.077  O27   UZ4  27  
VR4  C15  C10  C  0  1  N  N  R  18.512  15.951   0.332   3.306  -1.173  -1.434  C28   UZ4  28  
VR4  O26  O4   O  0  1  N  N  N  19.733  16.261   1.018   3.178  -1.625  -2.783  O29   UZ4  29  
VR4  C16  C11  C  0  1  N  N  N  17.532  15.479   1.383   3.607   0.304  -1.425  C31   UZ4  30  
VR4  O25  O3   O  0  1  N  N  N  16.408  15.091   1.078   3.613   0.928  -2.466  O32   UZ4  31  
VR4  N17  N4   N  0  1  N  N  N  17.938  15.540   2.727   3.871   0.931  -0.262  N     ABN  32  
VR4  C18  C12  C  0  1  N  N  N  17.094  15.137   3.860   4.163   2.367  -0.254  C     ABN  33  
VR4  C19  C13  C  0  1  Y  N  N  16.364  16.298   4.467   4.420   2.819   1.161  C1    ABN  34  
VR4  C20  C14  C  0  1  Y  N  N  15.543  16.184   5.594   5.703   2.789   1.673  C2    ABN  35  
VR4  C21  C15  C  0  1  Y  N  N  14.860  17.303   6.103   5.939   3.204   2.971  C3    ABN  36  
VR4  C22  C16  C  0  1  Y  N  N  14.991  18.558   5.502   4.891   3.648   3.756  C4    ABN  37  
VR4  C23  C17  C  0  1  Y  N  N  15.791  18.680   4.380   3.608   3.678   3.243  C5    ABN  38  
VR4  C24  C18  C  0  1  Y  N  N  16.471  17.555   3.883   3.373   3.269   1.944  C6    ABN  39  
VR4  H27  H27  H  0  1  N  N  N  19.140  23.268  -3.713  -6.192  -0.578  -1.274  H7    P6S  40  
VR4  H28  H28  H  0  1  N  N  N  20.767  23.112  -4.459  -6.247   1.201  -1.225  H8    P6S  41  
VR4  H30  H30  H  0  1  N  N  N  22.394  26.959  -1.358  -9.004   2.258   2.408  H9    P6S  42  
VR4  H32  H32  H  0  1  N  N  N  19.482  28.011  -4.287  -8.877  -2.003   2.285  H10   P6S  43  
VR4  H29  H29  H  0  1  N  N  N  21.955  24.561  -1.789  -7.307   2.360   0.627  H20   P6S  44  
VR4  H31  H31  H  0  1  N  N  N  21.144  28.694  -2.606  -9.783   0.076   3.242  H21   P6S  45  
VR4  H33  H33  H  0  1  N  N  N  19.049  25.639  -4.729  -7.183  -1.901   0.501  H22   P6S  46  
VR4  H34  H34  H  0  1  N  N  N  21.571  21.435  -0.675  -2.321   0.455   0.562  H     LEU  47  
VR4  H1   H1   H  0  1  N  N  N  21.329  18.923  -2.125  -1.596  -0.228  -2.194  HA    LEU  48  
VR4  H18  H18  H  0  1  N  N  N  22.167  19.642   0.714  -1.823   2.277  -2.144  HB2   LEU  49  
VR4  H19  H19  H  0  1  N  N  N  22.096  17.960   0.087  -0.588   2.326  -0.863  HB3   LEU  50  
VR4  H20  H20  H  0  1  N  N  N  23.720  20.139  -1.230   0.977   1.103  -2.426  HG    LEU  51  
VR4  H21  H21  H  0  1  N  N  N  24.457  19.870   1.138   0.395   0.989  -4.806  HD11  LEU  52  
VR4  H22  H22  H  0  1  N  N  N  24.559  18.092   0.904  -0.837   0.125  -3.855  HD12  LEU  53  
VR4  H23  H23  H  0  1  N  N  N  25.663  19.182  -0.001  -1.180   1.754  -4.484  HD13  LEU  54  
VR4  H24  H24  H  0  1  N  N  N  24.907  18.186  -2.122   1.058   3.568  -2.166  HD21  LEU  55  
VR4  H25  H25  H  0  1  N  N  N  23.802  17.097  -1.217   1.443   3.089  -3.836  HD22  LEU  56  
VR4  H26  H26  H  0  1  N  N  N  23.160  18.130  -2.539  -0.165   3.743  -3.447  HD23  LEU  57  
VR4  H35  H35  H  0  1  N  N  N  19.614  17.353  -1.830   0.950  -0.522  -2.290  H2    UZ4  58  
VR4  H2   H2   H  0  1  N  N  N  17.643  17.968   0.264   2.097  -1.086   0.347  H4    UZ4  59  
VR4  H3   H3   H  0  1  N  N  N  16.160  16.399  -1.085   0.715  -3.104  -0.243  H5    UZ4  60  
VR4  H4   H4   H  0  1  N  N  N  17.398  16.459  -2.385   1.692  -3.295  -1.718  H6    UZ4  61  
VR4  H5   H5   H  0  1  N  N  N  17.162  18.940  -2.452   3.758  -3.387  -0.223  H7    UZ4  62  
VR4  H8   H8   H  0  1  N  N  N  15.263  18.489  -0.147   1.529  -5.446  -0.237  H8    UZ4  63  
VR4  H9   H9   H  0  1  N  N  N  16.158  19.972  -0.622   3.237  -5.620  -0.764  H9    UZ4  64  
VR4  H6   H6   H  0  1  N  N  N  14.422  20.713  -1.994   2.333  -6.531   1.697  H10   UZ4  65  
VR4  H7   H7   H  0  1  N  N  N  13.406  19.544  -1.083   4.008  -5.964   1.432  H11   UZ4  66  
VR4  H36  H36  H  0  1  N  N  N  13.408  18.792  -3.500   2.628  -4.603   3.254  H12   UZ4  67  
VR4  H10  H10  H  0  1  N  N  N  18.678  15.144  -0.397   4.118  -1.712  -0.946  H13   UZ4  68  
VR4  H38  H38  H  0  1  N  N  N  20.025  15.500   1.505   2.472  -1.187  -3.279  H14   UZ4  69  
VR4  H37  H37  H  0  1  N  N  N  18.858  15.879   2.924   3.866   0.432   0.570  HN2   ABN  70  
VR4  H11  H11  H  0  1  N  N  N  16.357  14.401   3.508   5.046   2.561  -0.863  H1    ABN  71  
VR4  H12  H12  H  0  1  N  N  N  17.731  14.678   4.630   3.313   2.913  -0.661  H2A   ABN  72  
VR4  H13  H13  H  0  1  N  N  N  15.432  15.225   6.079   6.522   2.442   1.060  H2    ABN  73  
VR4  H14  H14  H  0  1  N  N  N  14.226  17.191   6.970   6.942   3.181   3.372  H3    ABN  74  
VR4  H15  H15  H  0  1  N  N  N  14.477  19.417   5.906   5.075   3.972   4.769  H4    ABN  75  
VR4  H16  H16  H  0  1  N  N  N  15.893  19.636   3.888   2.789   4.025   3.856  H5    ABN  76  
VR4  H17  H17  H  0  1  N  N  N  17.101  17.672   3.014   2.371   3.292   1.543  H6    ABN  77  
#   #
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
VR4  O14  C10  DOUB  N  N   1  
VR4  C39  C38  DOUB  Y  N   2  
VR4  C39  C34  SING  Y  N   3  
VR4  C38  C37  SING  Y  N   4  
VR4  C33  C34  SING  N  N   5  
VR4  C33  O32  SING  N  N   6  
VR4  C34  C35  DOUB  Y  N   7  
VR4  O01  C02  DOUB  N  N   8  
VR4  C10  N11  SING  N  N   9  
VR4  C10  C09  SING  N  N  10  
VR4  N11  C12  SING  N  N  11  
VR4  C37  C36  DOUB  Y  N  12  
VR4  O32  C02  SING  N  N  13  
VR4  C02  N03  SING  N  N  14  
VR4  C35  C36  SING  Y  N  15  
VR4  C09  C08  SING  N  N  16  
VR4  C09  C13  SING  N  N  17  
VR4  C31  C29  SING  N  N  18  
VR4  C12  C13  SING  N  N  19  
VR4  C08  C07  SING  N  N  20  
VR4  N03  C04  SING  N  N  21  
VR4  C04  C05  SING  N  N  22  
VR4  C04  C28  SING  N  N  23  
VR4  N06  C05  SING  N  N  24  
VR4  N06  C07  SING  N  N  25  
VR4  C29  C28  SING  N  N  26  
VR4  C29  C30  SING  N  N  27  
VR4  C05  O27  DOUB  N  N  28  
VR4  C07  C15  SING  N  N  29  
VR4  C15  O26  SING  N  N  30  
VR4  C15  C16  SING  N  N  31  
VR4  O25  C16  DOUB  N  N  32  
VR4  C16  N17  SING  N  N  33  
VR4  N17  C18  SING  N  N  34  
VR4  C18  C19  SING  N  N  35  
VR4  C24  C23  DOUB  Y  N  36  
VR4  C24  C19  SING  Y  N  37  
VR4  C23  C22  SING  Y  N  38  
VR4  C19  C20  DOUB  Y  N  39  
VR4  C22  C21  DOUB  Y  N  40  
VR4  C20  C21  SING  Y  N  41  
VR4  C04  H1   SING  N  N  42  
VR4  C07  H2   SING  N  N  43  
VR4  C08  H3   SING  N  N  44  
VR4  C08  H4   SING  N  N  45  
VR4  C09  H5   SING  N  N  46  
VR4  C12  H6   SING  N  N  47  
VR4  C12  H7   SING  N  N  48  
VR4  C13  H8   SING  N  N  49  
VR4  C13  H9   SING  N  N  50  
VR4  C15  H10  SING  N  N  51  
VR4  C18  H11  SING  N  N  52  
VR4  C18  H12  SING  N  N  53  
VR4  C20  H13  SING  N  N  54  
VR4  C21  H14  SING  N  N  55  
VR4  C22  H15  SING  N  N  56  
VR4  C23  H16  SING  N  N  57  
VR4  C24  H17  SING  N  N  58  
VR4  C28  H18  SING  N  N  59  
VR4  C28  H19  SING  N  N  60  
VR4  C29  H20  SING  N  N  61  
VR4  C30  H21  SING  N  N  62  
VR4  C30  H22  SING  N  N  63  
VR4  C30  H23  SING  N  N  64  
VR4  C31  H24  SING  N  N  65  
VR4  C31  H25  SING  N  N  66  
VR4  C31  H26  SING  N  N  67  
VR4  C33  H27  SING  N  N  68  
VR4  C33  H28  SING  N  N  69  
VR4  C35  H29  SING  N  N  70  
VR4  C36  H30  SING  N  N  71  
VR4  C37  H31  SING  N  N  72  
VR4  C38  H32  SING  N  N  73  
VR4  C39  H33  SING  N  N  74  
VR4  N03  H34  SING  N  N  75  
VR4  N06  H35  SING  N  N  76  
VR4  N11  H36  SING  N  N  77  
VR4  N17  H37  SING  N  N  78  
VR4  O26  H38  SING  N  N  79  
#   #
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
VR4  SMILES            ACDLabs               12.01  "C(c1ccccc1)OC(NC(C(=O)NC(C(O)C(NCc2ccccc2)=O)CC3CCNC3=O)CC(C)C)=O"  
VR4  InChI             InChI                 1.03   "InChI=1S/C29H38N4O6/c1-19(2)15-24(33-29(38)39-18-21-11-7-4-8-12-21)27(36)32-23(16-22-13-14-30-26(22)35)25(34)28(37)31-17-20-9-5-3-6-10-20/h3-12,19,22-25,34H,13-18H2,1-2H3,(H,30,35)(H,31,37)(H,32,36)(H,33,38)/t22-,23-,24-,25+/m0/s1"  
VR4  InChIKey          InChI                 1.03   MPMTWRHFCLPCDF-OJJQZRKESA-N  
VR4  SMILES_CANONICAL  CACTVS                3.385  "CC(C)C[C@H](NC(=O)OCc1ccccc1)C(=O)N[C@@H](C[C@@H]2CCNC2=O)[C@@H](O)C(=O)NCc3ccccc3"  
VR4  SMILES            CACTVS                3.385  "CC(C)C[CH](NC(=O)OCc1ccccc1)C(=O)N[CH](C[CH]2CCNC2=O)[CH](O)C(=O)NCc3ccccc3"  
VR4  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CC(C)C[C@@H](C(=O)N[C@@H](C[C@@H]1CCNC1=O)[C@H](C(=O)NCc2ccccc2)O)NC(=O)OCc3ccccc3"  
VR4  SMILES            "OpenEye OEToolkits"  2.0.7  "CC(C)CC(C(=O)NC(CC1CCNC1=O)C(C(=O)NCc2ccccc2)O)NC(=O)OCc3ccccc3"  
#   #
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
VR4  "SYSTEMATIC NAME"  ACDLabs               12.01  "N-{(2S,3R)-4-(benzylamino)-3-hydroxy-4-oxo-1-[(3S)-2-oxopyrrolidin-3-yl]butan-2-yl}-N~2~-[(benzyloxy)carbonyl]-L-leucinamide"  
VR4  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "(phenylmethyl) ~{N}-[(2~{S})-4-methyl-1-oxidanylidene-1-[[(2~{S},3~{R})-3-oxidanyl-4-oxidanylidene-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]-4-[(phenylmethyl)amino]butan-2-yl]amino]pentan-2-yl]carbamate"  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     VR4
_pdbx_chem_comp_synonyms.name        "GC376 alpha-ketoamide analog (bound form)"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
VR4  "Create component"  2020-09-09  RCSB  
VR4  "Initial release"   2021-01-13  RCSB  
##
