data_ZJK
# 
_chem_comp.id                                    ZJK 
_chem_comp.name                                  "1-oxidanyl-6,8,9,11-tetraphenyl-2,4-dioxa-6,8,9,11-tetraza-1$l^{5},5$l^{4}-diruthenatricyclo[3.3.3.0^{1,5}]undecane" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C27 H27 N4 O3 Ru2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-27 
_chem_comp.pdbx_modified_date                    2023-09-08 
_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                        657.668 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     ZJK 
_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        8PH5 
_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 
ZJK RU1 RU1 RU 0 0 N N N 1.181  -23.906 15.871 -1.222 -0.293 0.025  RU1 ZJK 1  
ZJK RU2 RU2 RU 0 0 N N N -0.017 -25.348 14.484 0.704  0.733  -1.121 RU2 ZJK 2  
ZJK O1  O1  O  0 1 N N N -1.081 -23.736 13.726 -0.161 -0.215 -2.457 O1  ZJK 3  
ZJK O2  O2  O  0 1 N N N 0.161  -22.328 14.945 -2.223 -0.902 -1.360 O2  ZJK 4  
ZJK N1  N1  N  0 1 N N N 1.047  -26.957 15.150 0.544  1.669  0.577  N1  ZJK 5  
ZJK N4  N2  N  0 1 N N N -1.355 -25.532 16.015 1.741  -0.759 -0.476 N4  ZJK 6  
ZJK N3  N3  N  0 1 N N N -0.154 -24.124 17.406 -0.271 -1.637 1.031  N3  ZJK 7  
ZJK N2  N4  N  0 1 N N N 2.292  -25.502 16.471 -1.887 1.156  1.073  N2  ZJK 8  
ZJK C1  C1  C  0 1 Y N N -2.571 -26.254 15.785 3.131  -0.914 -0.687 C1  ZJK 9  
ZJK C2  C2  C  0 1 Y N N -0.327 -23.817 19.903 -1.234 -3.485 -0.187 C2  ZJK 10 
ZJK C3  C3  C  0 1 Y N N -0.209 -23.321 18.604 -0.964 -2.850 1.019  C3  ZJK 11 
ZJK C4  C4  C  0 1 Y N N -3.536 -25.895 14.857 3.829  0.019  -1.443 C4  ZJK 12 
ZJK C5  C5  C  0 1 Y N N 0.972  -28.269 14.596 1.618  1.863  1.469  C5  ZJK 13 
ZJK C6  C6  C  0 1 Y N N -4.957 -27.813 15.368 5.850  -1.217 -1.099 C6  ZJK 14 
ZJK C7  C7  C  0 1 Y N N -0.187 -21.946 18.468 -1.384 -3.424 2.212  C7  ZJK 15 
ZJK C8  C8  C  0 1 N N N -0.775 -22.601 14.154 -1.580 -0.123 -2.436 C8  ZJK 16 
ZJK C9  C9  C  0 1 Y N N 3.364  -25.347 17.395 -3.102 1.626  0.569  C9  ZJK 17 
ZJK C10 C10 C  0 1 Y N N -0.240 -21.094 19.558 -2.069 -4.623 2.196  C10 ZJK 18 
ZJK C11 C11 C  0 1 Y N N -2.845 -27.442 16.427 3.803  -1.996 -0.133 C11 ZJK 19 
ZJK C12 C12 C  0 1 Y N N -4.678 -26.658 14.683 5.186  -0.135 -1.647 C12 ZJK 20 
ZJK C13 C13 C  0 1 N N N 2.046  -26.690 15.965 -0.798 2.167  0.867  C13 ZJK 21 
ZJK C14 C14 C  0 1 Y N N -0.294 -21.568 20.840 -2.336 -5.253 0.995  C14 ZJK 22 
ZJK C15 C15 C  0 1 Y N N 2.127  -28.930 14.210 2.826  2.368  1.005  C15 ZJK 23 
ZJK C16 C16 C  0 1 N N N -1.241 -24.801 17.127 1.001  -1.767 0.269  C16 ZJK 24 
ZJK C17 C17 C  0 1 Y N N -3.993 -28.187 16.253 5.160  -2.145 -0.340 C17 ZJK 25 
ZJK C18 C18 C  0 1 Y N N -0.358 -22.933 20.980 -1.919 -4.685 -0.195 C18 ZJK 26 
ZJK C20 C19 C  0 1 Y N N -0.208 -28.948 14.412 1.469  1.555  2.816  C20 ZJK 27 
ZJK C21 C20 C  0 1 Y N N 3.027  -25.120 18.710 -4.030 0.734  0.046  C21 ZJK 28 
ZJK C23 C21 C  0 1 Y N N 4.703  -25.443 17.090 -3.387 2.985  0.594  C23 ZJK 29 
ZJK C25 C22 C  0 1 Y N N 2.097  -30.220 13.663 3.876  2.557  1.882  C25 ZJK 30 
ZJK C26 C23 C  0 1 Y N N -0.224 -30.238 13.892 2.523  1.747  3.687  C26 ZJK 31 
ZJK C27 C24 C  0 1 Y N N 5.655  -25.307 18.101 -4.589 3.446  0.095  C27 ZJK 32 
ZJK C28 C25 C  0 1 Y N N 3.989  -24.998 19.683 -5.231 1.202  -0.451 C28 ZJK 33 
ZJK C29 C26 C  0 1 Y N N 0.909  -30.875 13.491 3.727  2.244  3.221  C29 ZJK 34 
ZJK C30 C27 C  0 1 Y N N 5.320  -25.049 19.414 -5.509 2.557  -0.429 C30 ZJK 35 
ZJK O5  O3  O  0 1 N N N -1.255 -26.342 12.718 0.790  2.259  -2.081 O5  ZJK 36 
ZJK H1  H1  H  0 1 N N N -0.394 -24.881 20.073 -0.913 -3.040 -1.117 H1  ZJK 37 
ZJK H2  H2  H  0 1 N N N -3.395 -25.006 14.260 3.310  0.864  -1.872 H2  ZJK 38 
ZJK H3  H3  H  0 1 N N N -5.865 -28.378 15.218 6.912  -1.335 -1.259 H3  ZJK 39 
ZJK H4  H4  H  0 1 N N N -0.126 -21.521 17.477 -1.175 -2.932 3.151  H4  ZJK 40 
ZJK H5  H5  H  0 1 N N N -0.573 -22.001 13.254 -1.860 0.930  -2.322 H5  ZJK 41 
ZJK H6  H6  H  0 1 N N N -1.684 -22.227 14.647 -1.966 -0.474 -3.401 H6  ZJK 42 
ZJK H7  H7  H  0 1 N N N -0.239 -20.027 19.392 -2.396 -5.069 3.124  H7  ZJK 43 
ZJK H8  H8  H  0 1 N N N -2.105 -27.818 17.118 3.264  -2.721 0.459  H8  ZJK 44 
ZJK H9  H9  H  0 1 N N N -5.401 -26.319 13.956 5.729  0.590  -2.235 H9  ZJK 45 
ZJK H10 H10 H  0 1 N N N 1.911  -27.358 16.828 -0.728 2.786  1.772  H10 ZJK 46 
ZJK H11 H11 H  0 1 N N N 2.958  -26.975 15.420 -1.091 2.828  0.040  H11 ZJK 47 
ZJK H12 H12 H  0 1 N N N -0.287 -20.907 21.694 -2.871 -6.191 0.985  H12 ZJK 48 
ZJK H13 H13 H  0 1 N N N 3.079  -28.436 14.334 2.944  2.613  -0.040 H13 ZJK 49 
ZJK H14 H14 H  0 1 N N N -2.061 -24.068 17.099 0.835  -2.590 -0.456 H14 ZJK 50 
ZJK H15 H15 H  0 1 N N N -1.396 -25.493 17.968 1.739  -2.177 0.991  H15 ZJK 51 
ZJK H16 H16 H  0 1 N N N -4.130 -29.088 16.833 5.682  -2.988 0.086  H16 ZJK 52 
ZJK H17 H17 H  0 1 N N N -0.436 -23.342 21.976 -2.133 -5.177 -1.132 H17 ZJK 53 
ZJK H18 H18 H  0 1 N N N -1.140 -28.471 14.676 0.530  1.167  3.181  H18 ZJK 54 
ZJK H19 H19 H  0 1 N N N 1.985  -25.036 18.982 -3.814 -0.324 0.029  H19 ZJK 55 
ZJK H20 H20 H  0 1 N N N 5.015  -25.623 16.072 -2.669 3.680  1.004  H20 ZJK 56 
ZJK H21 H21 H  0 1 N N N 3.020  -30.701 13.375 4.816  2.950  1.522  H21 ZJK 57 
ZJK H22 H22 H  0 1 N N N -1.170 -30.752 13.803 2.408  1.508  4.734  H22 ZJK 58 
ZJK H23 H23 H  0 1 N N N 6.699  -25.408 17.844 -4.811 4.503  0.114  H23 ZJK 59 
ZJK H24 H24 H  0 1 N N N 3.674  -24.855 20.706 -5.953 0.510  -0.858 H24 ZJK 60 
ZJK H25 H25 H  0 1 N N N 0.872  -31.861 13.053 4.549  2.392  3.904  H25 ZJK 61 
ZJK H26 H26 H  0 1 N N N 6.067  -24.897 20.179 -6.449 2.920  -0.818 H26 ZJK 62 
ZJK H27 H27 H  0 1 N N N -1.052 -27.269 12.671 1.688  2.593  -2.208 H27 ZJK 63 
# 
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 
ZJK O5  RU2 SING N N 1  
ZJK C29 C25 DOUB Y N 2  
ZJK C29 C26 SING Y N 3  
ZJK C25 C15 SING Y N 4  
ZJK O1  C8  SING N N 5  
ZJK O1  RU2 SING N N 6  
ZJK C26 C20 DOUB Y N 7  
ZJK C8  O2  SING N N 8  
ZJK C15 C5  DOUB Y N 9  
ZJK C20 C5  SING Y N 10 
ZJK RU2 N1  SING N N 11 
ZJK RU2 RU1 SING N N 12 
ZJK RU2 N4  SING N N 13 
ZJK C5  N1  SING N N 14 
ZJK C12 C4  DOUB Y N 15 
ZJK C12 C6  SING Y N 16 
ZJK C4  C1  SING Y N 17 
ZJK O2  RU1 SING N N 18 
ZJK N1  C13 SING N N 19 
ZJK C6  C17 DOUB Y N 20 
ZJK C1  N4  SING N N 21 
ZJK C1  C11 DOUB Y N 22 
ZJK RU1 N2  SING N N 23 
ZJK RU1 N3  SING N N 24 
ZJK C13 N2  SING N N 25 
ZJK N4  C16 SING N N 26 
ZJK C17 C11 SING Y N 27 
ZJK N2  C9  SING N N 28 
ZJK C23 C9  DOUB Y N 29 
ZJK C23 C27 SING Y N 30 
ZJK C16 N3  SING N N 31 
ZJK C9  C21 SING Y N 32 
ZJK N3  C3  SING N N 33 
ZJK C27 C30 DOUB Y N 34 
ZJK C7  C3  DOUB Y N 35 
ZJK C7  C10 SING Y N 36 
ZJK C3  C2  SING Y N 37 
ZJK C21 C28 DOUB Y N 38 
ZJK C30 C28 SING Y N 39 
ZJK C10 C14 DOUB Y N 40 
ZJK C2  C18 DOUB Y N 41 
ZJK C14 C18 SING Y N 42 
ZJK C2  H1  SING N N 43 
ZJK C4  H2  SING N N 44 
ZJK C6  H3  SING N N 45 
ZJK C7  H4  SING N N 46 
ZJK C8  H5  SING N N 47 
ZJK C8  H6  SING N N 48 
ZJK C10 H7  SING N N 49 
ZJK C11 H8  SING N N 50 
ZJK C12 H9  SING N N 51 
ZJK C13 H10 SING N N 52 
ZJK C13 H11 SING N N 53 
ZJK C14 H12 SING N N 54 
ZJK C15 H13 SING N N 55 
ZJK C16 H14 SING N N 56 
ZJK C16 H15 SING N N 57 
ZJK C17 H16 SING N N 58 
ZJK C18 H17 SING N N 59 
ZJK C20 H18 SING N N 60 
ZJK C21 H19 SING N N 61 
ZJK C23 H20 SING N N 62 
ZJK C25 H21 SING N N 63 
ZJK C26 H22 SING N N 64 
ZJK C27 H23 SING N N 65 
ZJK C28 H24 SING N N 66 
ZJK C29 H25 SING N N 67 
ZJK C30 H26 SING N N 68 
ZJK O5  H27 SING N N 69 
# 
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 
ZJK InChI            InChI                1.06  "InChI=1S/2C13H12N2.CH2O2.H2O.2Ru/c2*1-3-7-12(8-4-1)14-11-15-13-9-5-2-6-10-13;2-1-3;;;/h2*1-10H,11H2;1H2;1H2;;/q3*-2;;+3;+4/p-1" 
ZJK InChIKey         InChI                1.06  CVAAOOFKUNUXPY-UHFFFAOYSA-M                                                                                                      
ZJK SMILES_CANONICAL CACTVS               3.385 "O[Ru]12OCO[Ru](N(CN1c3ccccc3)c4ccccc4)N(CN2c5ccccc5)c6ccccc6"                                                                   
ZJK SMILES           CACTVS               3.385 "O[Ru]12OCO[Ru](N(CN1c3ccccc3)c4ccccc4)N(CN2c5ccccc5)c6ccccc6"                                                                   
ZJK SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)N2CN([Ru]34([Ru]2(N(CN3c5ccccc5)c6ccccc6)OCO4)O)c7ccccc7"                                                             
ZJK SMILES           "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)N2CN([Ru]34([Ru]2(N(CN3c5ccccc5)c6ccccc6)OCO4)O)c7ccccc7"                                                             
# 
_pdbx_chem_comp_identifier.comp_id           ZJK 
_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        "1-oxidanyl-6,8,9,11-tetraphenyl-2,4-dioxa-6,8,9,11-tetraza-1$l^{5},5$l^{4}-diruthenatricyclo[3.3.3.0^{1,5}]undecane" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
ZJK "Create component" 2023-06-27 PDBE 
ZJK "Initial release"  2023-09-13 RCSB 
# 
