data_PN6
#

_chem_comp.id                                   PN6
_chem_comp.name                                 "(3Z,6Z)-3-benzylidene-6-[(5-tert-butyl-1H-imidazol-4-yl)methylidene]piperazine-2,5-dione"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C19 H20 N4 O2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        Plinabulin
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2015-08-28
_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                       336.388
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    PN6
_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       5C8Y
_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
PN6  C6   C1   C  0  1  N  N  N  -15.109  -65.896  39.828  -1.770   0.419  -0.424  C6   PN6   1  
PN6  C2   C2   C  0  1  Y  N  N  -15.674  -65.700  41.007  -2.852  -0.468   0.018  C2   PN6   2  
PN6  C4   C3   C  0  1  Y  N  N  -16.885  -64.866  42.491  -3.918  -2.259   0.611  C4   PN6   3  
PN6  C23  C4   C  0  1  N  N  N  -14.638  -68.017  43.734  -6.191   1.260   0.600  C23  PN6   4  
PN6  C22  C5   C  0  1  N  N  N  -14.511  -67.485  42.348  -4.714   1.293   0.203  C22  PN6   5  
PN6  C24  C6   C  0  1  N  N  N  -13.091  -67.083  42.198  -4.583   1.806  -1.232  C24  PN6   6  
PN6  C25  C7   C  0  1  N  N  N  -14.822  -68.580  41.376  -3.952   2.222   1.149  C25  PN6   7  
PN6  C1   C8   C  0  1  Y  N  N  -15.465  -66.332  42.133  -4.139  -0.098   0.294  C1   PN6   8  
PN6  N5   N1   N  0  1  Y  N  N  -16.221  -65.827  43.061  -4.801  -1.229   0.666  N5   PN6   9  
PN6  N3   N2   N  0  1  Y  N  N  -16.555  -64.791  41.235  -2.760  -1.807   0.221  N3   PN6  10  
PN6  C7   C9   C  0  1  N  N  N  -15.787  -65.376  38.767  -0.514  -0.069  -0.581  C7   PN6  11  
PN6  C8   C10  C  0  1  N  N  N  -15.482  -65.618  37.456   0.601   0.839  -0.872  C8   PN6  12  
PN6  O20  O1   O  0  1  N  N  N  -14.550  -66.319  37.143   0.384   1.981  -1.234  O20  PN6  13  
PN6  N9   N3   N  0  1  N  N  N  -16.227  -65.070  36.458   1.870   0.400  -0.733  N9   PN6  14  
PN6  N12  N4   N  0  1  N  N  N  -16.823  -64.580  39.066  -0.272  -1.444  -0.463  N12  PN6  15  
PN6  C11  C11  C  0  1  N  N  N  -17.579  -64.018  38.086   0.998  -1.885  -0.335  C11  PN6  16  
PN6  O21  O2   O  0  1  N  N  N  -18.510  -63.308  38.424   1.226  -3.075  -0.229  O21  PN6  17  
PN6  C10  C12  C  0  1  N  N  N  -17.281  -64.273  36.768   2.102  -0.912  -0.314  C10  PN6  18  
PN6  C13  C13  C  0  1  N  N  N  -18.039  -63.682  35.792   3.335  -1.287   0.103  C13  PN6  19  
PN6  C14  C14  C  0  1  Y  N  N  -18.100  -64.215  34.531   4.388  -0.278   0.284  C14  PN6  20  
PN6  C15  C15  C  0  1  Y  N  N  -17.980  -65.552  34.317   4.050   1.041   0.609  C15  PN6  21  
PN6  C16  C16  C  0  1  Y  N  N  -18.074  -66.021  33.017   5.044   1.981   0.777  C16  PN6  22  
PN6  C17  C17  C  0  1  Y  N  N  -18.303  -65.177  31.954   6.373   1.624   0.627  C17  PN6  23  
PN6  C18  C18  C  0  1  Y  N  N  -18.439  -63.840  32.177   6.715   0.322   0.306  C18  PN6  24  
PN6  C19  C19  C  0  1  Y  N  N  -18.339  -63.373  33.468   5.734  -0.632   0.140  C19  PN6  25  
PN6  H1   H1   H  0  1  N  N  N  -14.177  -66.430  39.714  -1.974   1.460  -0.628  H1   PN6  26  
PN6  H2   H2   H  0  1  N  N  N  -17.602  -64.227  42.985  -4.140  -3.288   0.850  H2   PN6  27  
PN6  H3   H3   H  0  1  N  N  N  -14.411  -67.219  44.456  -6.734   0.598  -0.074  H3   PN6  28  
PN6  H4   H4   H  0  1  N  N  N  -15.665  -68.377  43.896  -6.285   0.894   1.622  H4   PN6  29  
PN6  H5   H5   H  0  1  N  N  N  -13.932  -68.849  43.873  -6.607   2.266   0.534  H5   PN6  30  
PN6  H6   H6   H  0  1  N  N  N  -12.860  -66.278  42.911  -4.999   2.812  -1.298  H6   PN6  31  
PN6  H7   H7   H  0  1  N  N  N  -12.442  -67.948  42.399  -3.530   1.829  -1.515  H7   PN6  32  
PN6  H8   H8   H  0  1  N  N  N  -12.918  -66.725  41.173  -5.126   1.144  -1.906  H8   PN6  33  
PN6  H9   H9   H  0  1  N  N  N  -14.128  -69.419  41.533  -4.046   1.856   2.172  H9   PN6  34  
PN6  H10  H10  H  0  1  N  N  N  -15.855  -68.925  41.531  -2.900   2.245   0.866  H10  PN6  35  
PN6  H11  H11  H  0  1  N  N  N  -14.713  -68.201  40.349  -4.368   3.228   1.084  H11  PN6  36  
PN6  H12  H12  H  0  1  N  N  N  -16.280  -66.118  44.016  -5.734  -1.288   0.927  H12  PN6  37  
PN6  H14  H14  H  0  1  N  N  N  -17.043  -64.397  40.024  -1.010  -2.073  -0.472  H14  PN6  38  
PN6  H15  H15  H  0  1  N  N  N  -18.596  -62.785  36.019   3.544  -2.328   0.301  H15  PN6  39  
PN6  H17  H17  H  0  1  N  N  N  -17.815  -66.232  35.140   3.014   1.321   0.726  H17  PN6  40  
PN6  H18  H18  H  0  1  N  N  N  -17.964  -67.079  32.832   4.785   3.000   1.028  H18  PN6  41  
PN6  H19  H19  H  0  1  N  N  N  -18.374  -65.572  30.951   7.147   2.367   0.756  H19  PN6  42  
PN6  H20  H20  H  0  1  N  N  N  -18.622  -63.160  31.358   7.755   0.052   0.190  H20  PN6  43  
PN6  H21  H21  H  0  1  N  N  N  -18.451  -62.315  33.653   6.003  -1.647  -0.111  H21  PN6  44  
PN6  H13  H13  H  0  1  N  N  N  -15.999  -65.253  35.502   2.615   0.992  -0.924  H13  PN6  45  
#   #
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
PN6  C17  C18  DOUB  Y  N   1  
PN6  C17  C16  SING  Y  N   2  
PN6  C18  C19  SING  Y  N   3  
PN6  C16  C15  DOUB  Y  N   4  
PN6  C19  C14  DOUB  Y  N   5  
PN6  C15  C14  SING  Y  N   6  
PN6  C14  C13  SING  N  N   7  
PN6  C13  C10  DOUB  N  Z   8  
PN6  N9   C10  SING  N  N   9  
PN6  N9   C8   SING  N  N  10  
PN6  C10  C11  SING  N  N  11  
PN6  O20  C8   DOUB  N  N  12  
PN6  C8   C7   SING  N  N  13  
PN6  C11  O21  DOUB  N  N  14  
PN6  C11  N12  SING  N  N  15  
PN6  C7   N12  SING  N  N  16  
PN6  C7   C6   DOUB  N  Z  17  
PN6  C6   C2   SING  N  N  18  
PN6  C2   N3   SING  Y  N  19  
PN6  C2   C1   DOUB  Y  N  20  
PN6  N3   C4   DOUB  Y  N  21  
PN6  C25  C22  SING  N  N  22  
PN6  C1   C22  SING  N  N  23  
PN6  C1   N5   SING  Y  N  24  
PN6  C24  C22  SING  N  N  25  
PN6  C22  C23  SING  N  N  26  
PN6  C4   N5   SING  Y  N  27  
PN6  C6   H1   SING  N  N  28  
PN6  C4   H2   SING  N  N  29  
PN6  C23  H3   SING  N  N  30  
PN6  C23  H4   SING  N  N  31  
PN6  C23  H5   SING  N  N  32  
PN6  C24  H6   SING  N  N  33  
PN6  C24  H7   SING  N  N  34  
PN6  C24  H8   SING  N  N  35  
PN6  C25  H9   SING  N  N  36  
PN6  C25  H10  SING  N  N  37  
PN6  C25  H11  SING  N  N  38  
PN6  N5   H12  SING  N  N  39  
PN6  N12  H14  SING  N  N  40  
PN6  C13  H15  SING  N  N  41  
PN6  C15  H17  SING  N  N  42  
PN6  C16  H18  SING  N  N  43  
PN6  C17  H19  SING  N  N  44  
PN6  C18  H20  SING  N  N  45  
PN6  C19  H21  SING  N  N  46  
PN6  N9   H13  SING  N  N  47  
#   #
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
PN6  SMILES            ACDLabs               12.01  "[C@H](c1ncnc1C(C)(C)C)=C2NC(=O)C(NC2=O)=[C@H]c3ccccc3"  
PN6  InChI             InChI                 1.03   "InChI=1S/C19H20N4O2/c1-19(2,3)16-13(20-11-21-16)10-15-18(25)22-14(17(24)23-15)9-12-7-5-4-6-8-12/h4-11H,1-3H3,(H,20,21)(H,22,25)(H,23,24)/b14-9-,15-10-"  
PN6  InChIKey          InChI                 1.03   UNRCMCRRFYFGFX-TYPNBTCFSA-N  
PN6  SMILES_CANONICAL  CACTVS                3.385  "CC(C)(C)c1[nH]cnc1/C=C/2NC(=O)C(/NC/2=O)=C/c3ccccc3"  
PN6  SMILES            CACTVS                3.385  "CC(C)(C)c1[nH]cnc1C=C2NC(=O)C(NC2=O)=Cc3ccccc3"  
PN6  SMILES_CANONICAL  "OpenEye OEToolkits"  1.9.2  "CC(C)(C)c1c(nc[nH]1)/C=C\2/C(=O)N/C(=C\c3ccccc3)/C(=O)N2"  
PN6  SMILES            "OpenEye OEToolkits"  1.9.2  "CC(C)(C)c1c(nc[nH]1)C=C2C(=O)NC(=Cc3ccccc3)C(=O)N2"  
#   #
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
PN6  "SYSTEMATIC NAME"  ACDLabs               12.01  "(3Z,6Z)-3-benzylidene-6-[(5-tert-butyl-1H-imidazol-4-yl)methylidene]piperazine-2,5-dione"  
PN6  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.9.2  "(3Z,6Z)-3-[(5-tert-butyl-1H-imidazol-4-yl)methylidene]-6-(phenylmethylidene)piperazine-2,5-dione"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
PN6  "Create component"  2015-08-28  PDBJ  
PN6  "Initial release"   2015-11-04  RCSB  
PN6  "Modify synonyms"   2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     PN6
_pdbx_chem_comp_synonyms.name        Plinabulin
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
