data_JD9
#

_chem_comp.id                                   JD9
_chem_comp.name                                 "2,6,11-trimethoxy-4,7,9-tris(oxidanyl)-1,12-bis[(2R)-2-oxidanylpropyl]perylene-3,10-dione"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C29 H28 O10"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-05-20
_chem_comp.pdbx_modified_date                   2022-05-20
_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                       536.527
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    JD9
_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       7EUU
_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
JD9  C13  C1   C  0  1  Y  N  N  -3.785   -3.977  26.518  -1.045  -4.247  -0.173  C13  JD9   1  
JD9  C15  C2   C  0  1  Y  N  N  -2.494   -5.544  24.645  -0.859  -1.462  -0.154  C15  JD9   2  
JD9  C17  C3   C  0  1  Y  N  N   2.359   -5.085  25.083   4.001  -0.235   0.507  C17  JD9   3  
JD9  C20  C4   C  0  1  Y  N  N  -2.442   -3.903  26.238   0.147  -3.635   0.177  C20  JD9   4  
JD9  C21  C5   C  0  1  Y  N  N  -1.719   -4.888  25.554   0.306  -2.248   0.000  C21  JD9   5  
JD9  C22  C6   C  0  1  N  N  N   0.125   -8.475  24.295   0.559   1.963  -0.472  C22  JD9   6  
JD9  C24  C7   C  0  1  Y  N  N  -2.027   -6.889  24.265  -0.810  -0.050   0.024  C24  JD9   7  
JD9  C26  C8   C  0  1  N  N  N  -4.680   -6.494  24.087  -3.288  -1.248  -0.546  C26  JD9   8  
JD9  C28  C9   C  0  1  N  N  N   2.206   -7.356  24.371   2.799   1.962   0.503  C28  JD9   9  
JD9  O01  O1   O  0  1  N  N  N   0.053   -2.288  25.749   2.911  -3.522  -0.574  O01  JD9  10  
JD9  O02  O2   O  0  1  N  N  N   3.592   -7.427  24.357   3.702   2.571   1.046  O02  JD9  11  
JD9  O03  O3   O  0  1  N  N  N   2.048   -9.771  23.805   1.684   4.018  -0.232  O03  JD9  12  
JD9  O04  O4   O  0  1  N  N  N  -1.752   -3.198  27.237   1.123  -4.402   0.717  O04  JD9  13  
JD9  O05  O5   O  0  1  N  N  N  -4.856   -7.699  21.925  -4.347   0.794   0.302  O05  JD9  14  
JD9  O06  O6   O  0  1  N  N  N  -6.069   -6.516  24.252  -4.308  -1.646  -1.069  O06  JD9  15  
JD9  O07  O7   O  0  1  N  N  N   3.708   -5.343  25.406   5.144   0.363   0.915  O07  JD9  16  
JD9  O08  O8   O  0  1  N  N  N  -5.888   -4.692  25.665  -3.296  -4.099  -0.914  O08  JD9  17  
JD9  O09  O9   O  0  1  N  N  N  -0.682   -6.354  21.233  -3.150   0.547   3.114  O09  JD9  18  
JD9  O10  O10  O  0  1  N  N  N  -1.338  -11.597  25.795   1.056   3.266  -3.032  O10  JD9  19  
JD9  C11  C10  C  0  1  N  N  N   0.853   -1.472  26.588   4.215  -4.105  -0.627  C11  JD9  20  
JD9  C12  C11  C  0  1  Y  N  N  -4.480   -4.619  25.530  -2.156  -3.485  -0.525  C12  JD9  21  
JD9  C14  C12  C  0  1  N  N  R  -0.768   -7.752  21.268  -1.934   1.238   2.822  C14  JD9  22  
JD9  C16  C13  C  0  1  N  N  N  -2.766   -7.353  22.942  -2.004   0.581   0.432  C16  JD9  23  
JD9  C18  C14  C  0  1  N  N  N  -4.064   -7.229  22.987  -3.216   0.090   0.064  C18  JD9  24  
JD9  C19  C15  C  0  1  N  N  N  -0.745   -9.747  24.430  -0.492   2.682  -1.271  C19  JD9  25  
JD9  C23  C16  C  0  1  Y  N  N   0.505   -3.593  25.487   2.829  -2.240  -0.152  C23  JD9  26  
JD9  C25  C17  C  0  1  N  N  N  -2.113   -8.226  21.851  -1.973   1.751   1.381  C25  JD9  27  
JD9  C27  C18  C  0  1  N  N  N   1.409   -8.527  24.083   1.647   2.675  -0.068  C27  JD9  28  
JD9  C29  C19  C  0  1  Y  N  N  -0.601   -7.081  24.288   0.419   0.607  -0.118  C29  JD9  29  
JD9  C30  C20  C  0  1  Y  N  N   0.108   -6.036  25.113   1.610  -0.158   0.057  C30  JD9  30  
JD9  C31  C21  C  0  1  Y  N  N  -3.839   -5.742  25.075  -2.093  -2.091  -0.424  C31  JD9  31  
JD9  C32  C22  C  0  1  Y  N  N   1.779   -3.735  25.313   4.003  -1.591   0.196  C32  JD9  32  
JD9  C33  C23  C  0  1  Y  N  N  -0.479   -4.751  25.063   1.597  -1.568  -0.033  C33  JD9  33  
JD9  C34  C24  C  0  1  N  N  R  -0.448  -10.522  25.720  -0.164   2.573  -2.761  C34  JD9  34  
JD9  C35  C25  C  0  1  Y  N  N   1.602   -6.046  24.678   2.823   0.505   0.358  C35  JD9  35  
JD9  C36  C26  C  0  1  N  N  N  -0.632   -9.678  26.981  -1.297   3.197  -3.579  C36  JD9  36  
JD9  C37  C27  C  0  1  N  N  N  -4.846   -6.883  20.772  -4.775   1.698  -0.719  C37  JD9  37  
JD9  C38  C28  C  0  1  N  N  N  -0.672   -8.400  19.886  -1.778   2.421   3.780  C38  JD9  38  
JD9  C39  C29  C  0  1  N  N  N   2.000  -10.209  22.459   1.173   4.816   0.837  C39  JD9  39  
JD9  H1   H1   H  0  1  N  N  N  -4.238   -3.576  27.412  -1.122  -5.322  -0.140  H1   JD9  40  
JD9  H11  H11  H  0  1  N  N  N  -2.333   -2.559  27.633   1.056  -4.506   1.676  H11  JD9  41  
JD9  H13  H13  H  0  1  N  N  N   3.956   -6.198  25.074   5.674   0.731   0.194  H13  JD9  42  
JD9  H14  H14  H  0  1  N  N  N  -6.220   -5.413  25.142  -3.905  -4.293  -0.189  H14  JD9  43  
JD9  H15  H15  H  0  1  N  N  N  -0.747   -6.010  22.116  -3.944   1.092   3.026  H15  JD9  44  
JD9  H16  H16  H  0  1  N  N  N  -1.171  -12.092  26.589   1.030   4.208  -2.813  H16  JD9  45  
JD9  H17  H17  H  0  1  N  N  N   0.378   -0.486  26.703   4.842  -3.531  -1.309  H17  JD9  46  
JD9  H18  H18  H  0  1  N  N  N   0.953   -1.948  27.575   4.658  -4.096   0.370  H18  JD9  47  
JD9  H19  H19  H  0  1  N  N  N   1.849   -1.349  26.138   4.139  -5.133  -0.980  H19  JD9  48  
JD9  H21  H21  H  0  1  N  N  N   0.038   -8.161  21.895  -1.091   0.558   2.943  H21  JD9  49  
JD9  H22  H22  H  0  1  N  N  N  -1.805   -9.452  24.431  -1.466   2.231  -1.079  H22  JD9  50  
JD9  H23  H23  H  0  1  N  N  N  -0.548  -10.403  23.570  -0.515   3.732  -0.979  H23  JD9  51  
JD9  H25  H25  H  0  1  N  N  N  -2.826   -8.298  21.017  -2.865   2.360   1.236  H25  JD9  52  
JD9  H26  H26  H  0  1  N  N  N  -1.951   -9.225  22.282  -1.086   2.354   1.186  H26  JD9  53  
JD9  H30  H30  H  0  1  N  N  N   2.424   -2.869  25.335   4.928  -2.147   0.221  H30  JD9  54  
JD9  H33  H33  H  0  1  N  N  N   0.591  -10.882  25.684  -0.054   1.524  -3.034  H33  JD9  55  
JD9  H35  H35  H  0  1  N  N  N  -0.405  -10.288  27.868  -1.407   4.246  -3.307  H35  JD9  56  
JD9  H36  H36  H  0  1  N  N  N   0.048   -8.814  26.946  -1.063   3.119  -4.641  H36  JD9  57  
JD9  H37  H37  H  0  1  N  N  N  -1.672   -9.324  27.036  -2.228   2.668  -3.373  H37  JD9  58  
JD9  H38  H38  H  0  1  N  N  N  -5.490   -7.330  20.000  -3.998   2.443  -0.893  H38  JD9  59  
JD9  H39  H39  H  0  1  N  N  N  -5.222   -5.881  21.029  -4.962   1.145  -1.639  H39  JD9  60  
JD9  H40  H40  H  0  1  N  N  N  -3.818   -6.802  20.389  -5.691   2.197  -0.402  H40  JD9  61  
JD9  H41  H41  H  0  1  N  N  N  -0.746   -9.493  19.987  -1.750   2.056   4.807  H41  JD9  62  
JD9  H42  H42  H  0  1  N  N  N  -1.493   -8.034  19.252  -0.850   2.949   3.557  H42  JD9  63  
JD9  H43  H43  H  0  1  N  N  N   0.292   -8.139  19.425  -2.621   3.101   3.659  H43  JD9  64  
JD9  H44  H44  H  0  1  N  N  N   2.522  -11.173  22.368   1.262   5.871   0.577  H44  JD9  65  
JD9  H45  H45  H  0  1  N  N  N   0.951  -10.330  22.150   0.125   4.571   1.005  H45  JD9  66  
JD9  H46  H46  H  0  1  N  N  N   2.489   -9.465  21.814   1.743   4.616   1.745  H46  JD9  67  
#   #
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
JD9  C38  C14  SING  N  N   1  
JD9  C37  O05  SING  N  N   2  
JD9  O09  C14  SING  N  N   3  
JD9  C14  C25  SING  N  N   4  
JD9  C25  C16  SING  N  N   5  
JD9  O05  C18  SING  N  N   6  
JD9  C39  O03  SING  N  N   7  
JD9  C16  C18  DOUB  N  N   8  
JD9  C16  C24  SING  N  N   9  
JD9  C18  C26  SING  N  N  10  
JD9  O03  C27  SING  N  N  11  
JD9  C27  C22  DOUB  N  N  12  
JD9  C27  C28  SING  N  N  13  
JD9  C26  O06  DOUB  N  N  14  
JD9  C26  C31  SING  N  N  15  
JD9  C24  C29  DOUB  Y  N  16  
JD9  C24  C15  SING  Y  N  17  
JD9  C29  C22  SING  N  N  18  
JD9  C29  C30  SING  Y  N  19  
JD9  C22  C19  SING  N  N  20  
JD9  O02  C28  DOUB  N  N  21  
JD9  C28  C35  SING  N  N  22  
JD9  C19  C34  SING  N  N  23  
JD9  C15  C31  SING  Y  N  24  
JD9  C15  C21  DOUB  Y  N  25  
JD9  C35  C17  SING  Y  N  26  
JD9  C35  C30  DOUB  Y  N  27  
JD9  C33  C30  SING  Y  N  28  
JD9  C33  C23  DOUB  Y  N  29  
JD9  C33  C21  SING  Y  N  30  
JD9  C31  C12  DOUB  Y  N  31  
JD9  C17  C32  DOUB  Y  N  32  
JD9  C17  O07  SING  N  N  33  
JD9  C32  C23  SING  Y  N  34  
JD9  C23  O01  SING  N  N  35  
JD9  C12  O08  SING  N  N  36  
JD9  C12  C13  SING  Y  N  37  
JD9  C21  C20  SING  Y  N  38  
JD9  C34  O10  SING  N  N  39  
JD9  C34  C36  SING  N  N  40  
JD9  O01  C11  SING  N  N  41  
JD9  C20  C13  DOUB  Y  N  42  
JD9  C20  O04  SING  N  N  43  
JD9  C13  H1   SING  N  N  44  
JD9  O04  H11  SING  N  N  45  
JD9  O07  H13  SING  N  N  46  
JD9  O08  H14  SING  N  N  47  
JD9  O09  H15  SING  N  N  48  
JD9  O10  H16  SING  N  N  49  
JD9  C11  H17  SING  N  N  50  
JD9  C11  H18  SING  N  N  51  
JD9  C11  H19  SING  N  N  52  
JD9  C14  H21  SING  N  N  53  
JD9  C19  H22  SING  N  N  54  
JD9  C19  H23  SING  N  N  55  
JD9  C25  H25  SING  N  N  56  
JD9  C25  H26  SING  N  N  57  
JD9  C32  H30  SING  N  N  58  
JD9  C34  H33  SING  N  N  59  
JD9  C36  H35  SING  N  N  60  
JD9  C36  H36  SING  N  N  61  
JD9  C36  H37  SING  N  N  62  
JD9  C37  H38  SING  N  N  63  
JD9  C37  H39  SING  N  N  64  
JD9  C37  H40  SING  N  N  65  
JD9  C38  H41  SING  N  N  66  
JD9  C38  H42  SING  N  N  67  
JD9  C38  H43  SING  N  N  68  
JD9  C39  H44  SING  N  N  69  
JD9  C39  H45  SING  N  N  70  
JD9  C39  H46  SING  N  N  71  
#   #
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
JD9  InChI             InChI                 1.03   "InChI=1S/C29H28O10/c1-10(30)6-12-18-19-13(7-11(2)31)29(39-5)27(36)22-16(34)9-17(37-3)23(25(19)22)20-14(32)8-15(33)21(24(18)20)26(35)28(12)38-4/h8-11,30-34H,6-7H2,1-5H3/t10-,11-/m1/s1"  
JD9  InChIKey          InChI                 1.03   SZXDWEFJNLPCTA-GHMZBOCLSA-N  
JD9  SMILES_CANONICAL  CACTVS                3.385  "COc1cc(O)c2C(=O)C(=C(C[C@@H](C)O)c3c4C(=C(OC)C(=O)c5c(O)cc(O)c(c1c23)c45)C[C@@H](C)O)OC"  
JD9  SMILES            CACTVS                3.385  "COc1cc(O)c2C(=O)C(=C(C[CH](C)O)c3c4C(=C(OC)C(=O)c5c(O)cc(O)c(c1c23)c45)C[CH](C)O)OC"  
JD9  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "C[C@H](CC1=C(C(=O)c2c(cc(c3c2c1c4c5c3c(cc(c5C(=O)C(=C4C[C@@H](C)O)OC)O)OC)O)O)OC)O"  
JD9  SMILES            "OpenEye OEToolkits"  2.0.7  "CC(CC1=C(C(=O)c2c(cc(c3c2c1c4c5c3c(cc(c5C(=O)C(=C4CC(C)O)OC)O)OC)O)O)OC)O"  
#
_pdbx_chem_comp_identifier.comp_id          JD9
_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       "2,6,11-trimethoxy-4,7,9-tris(oxidanyl)-1,12-bis[(2~{R})-2-oxidanylpropyl]perylene-3,10-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
JD9  "Create component"  2021-05-20  PDBJ  
JD9  "Initial release"   2022-05-25  RCSB  
##
