data_KSB
# 
_chem_comp.id                                    KSB 
_chem_comp.name                                  "lambda-[Ru(tap2-dppz-CN)]2+" 
_chem_comp.type                                  "D-beta-peptide, C-gamma linking" 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C39 H21 N13 Ru" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "Cyano-derivative of Ruthenium-dipyridophenazine" 
_chem_comp.pdbx_formal_charge                    6 
_chem_comp.pdbx_initial_date                     2016-08-23 
_chem_comp.pdbx_modified_date                    2024-01-03 
_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                        772.741 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     KSB 
_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        5LS8 
_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.pdbx_backbone_atom_flag 
_chem_comp_atom.pdbx_n_terminal_atom_flag 
_chem_comp_atom.pdbx_c_terminal_atom_flag 
_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 
KSB C1  C1  C  0 1 Y N N N N N 18.489 19.084 3.028  1.189  0.771  -0.213 C1  KSB 1  
KSB C10 C2  C  0 1 Y N N N N N 19.686 18.641 3.479  1.153  -0.126 0.924  C10 KSB 2  
KSB C11 C3  C  0 1 Y N N N N N 22.072 17.759 4.204  1.020  -1.686 3.172  C11 KSB 3  
KSB C12 C4  C  0 1 Y N N N N N 21.842 17.995 2.835  -0.102 -1.319 2.442  C12 KSB 4  
KSB C13 C5  C  0 1 Y N N N N N 17.870 18.748 7.948  5.932  -0.327 0.934  C13 KSB 5  
KSB C14 C6  C  0 1 Y N N N N N 18.016 18.561 9.318  7.139  -0.860 1.423  C14 KSB 6  
KSB C15 C7  C  0 1 Y N N N N N 16.659 19.211 7.442  5.968  0.563  -0.231 C15 KSB 7  
KSB C16 C8  C  0 1 Y N N N N N 15.591 19.483 8.296  7.206  0.850  -0.827 C16 KSB 8  
KSB C17 C9  C  0 1 Y N N N N N 15.734 19.275 9.669  8.360  0.288  -0.313 C17 KSB 9  
KSB C18 C10 C  0 1 Y N N N N N 16.948 18.826 10.174 8.313  -0.564 0.813  C18 KSB 10 
KSB C19 C11 C  0 1 Y N N N N N 21.760 20.971 0.445  -1.765 -2.533 -0.858 C19 KSB 11 
KSB C2  C12 C  0 1 Y N N N N N 17.326 19.680 1.127  0.030  2.017  -1.764 C2  KSB 12 
KSB C20 C13 C  0 1 Y N N N N N 19.861 21.630 1.595  -0.139 -1.631 -2.172 C20 KSB 13 
KSB C21 C14 C  0 1 Y N N N N N 20.412 22.920 1.627  -0.030 -2.836 -2.862 C21 KSB 14 
KSB C22 C15 C  0 1 Y N N N N N 22.305 22.233 0.473  -1.663 -3.763 -1.549 C22 KSB 15 
KSB C23 C16 C  0 1 Y N N N N N 23.550 22.412 -0.133 -2.495 -4.840 -1.162 C23 KSB 16 
KSB C24 C17 C  0 1 Y N N N N N 24.203 21.329 -0.742 -3.391 -4.711 -0.152 C24 KSB 17 
KSB C25 C18 C  0 1 Y N N N N N 23.610 20.067 -0.749 -3.529 -3.494 0.558  C25 KSB 18 
KSB C26 C19 C  0 1 Y N N N N N 22.388 19.925 -0.144 -2.712 -2.393 0.212  C26 KSB 19 
KSB C27 C20 C  0 1 Y N N N N N 23.497 17.794 -1.259 -4.498 -2.195 2.178  C27 KSB 20 
KSB C28 C21 C  0 1 Y N N N N N 22.248 17.655 -0.638 -3.684 -1.125 1.826  C28 KSB 21 
KSB C29 C22 C  0 1 Y N N N N N 19.215 16.943 -0.923 -2.998 2.239  0.620  C29 KSB 22 
KSB C3  C23 C  0 1 Y N N N N N 16.218 19.969 1.935  1.190  2.587  -2.260 C3  KSB 23 
KSB C30 C24 C  0 1 Y N N N N N 19.951 16.048 1.091  -1.691 1.952  2.459  C30 KSB 24 
KSB C31 C25 C  0 1 Y N N N N N 19.640 14.782 0.565  -2.296 3.055  3.058  C31 KSB 25 
KSB C32 C26 C  0 1 Y N N N N N 18.913 15.714 -1.447 -3.622 3.362  1.215  C32 KSB 26 
KSB C33 C27 C  0 1 Y N N N N N 18.398 15.675 -2.744 -4.629 4.050  0.500  C33 KSB 27 
KSB C34 C28 C  0 1 Y N N N N N 18.197 16.860 -3.469 -5.004 3.664  -0.743 C34 KSB 28 
KSB C35 C29 C  0 1 Y N N N N N 18.525 18.092 -2.897 -4.404 2.552  -1.383 C35 KSB 29 
KSB C36 C30 C  0 1 Y N N N N N 19.034 18.090 -1.621 -3.396 1.829  -0.699 C36 KSB 30 
KSB C37 C31 C  0 1 Y N N N N N 18.724 20.402 -2.837 -4.165 1.121  -3.154 C37 KSB 31 
KSB C38 C32 C  0 1 Y N N N N N 19.250 20.384 -1.530 -3.178 0.417  -2.467 C38 KSB 32 
KSB C39 C33 C  0 1 N N N N N N 14.766 19.524 10.488 9.622  0.571  -0.933 C39 KSB 33 
KSB C4  C34 C  0 1 Y N N N N N 16.242 19.809 3.320  2.409  2.194  -1.741 C4  KSB 34 
KSB C5  C35 C  0 1 Y N N N N N 17.413 19.348 3.884  2.416  1.250  -0.713 C5  KSB 35 
KSB C6  C36 C  0 1 Y N N N N N 17.561 19.145 5.258  3.683  0.741  -0.165 C6  KSB 36 
KSB C7  C37 C  0 1 Y N N N N N 18.785 18.676 5.745  3.648  -0.151 0.993  C7  KSB 37 
KSB C8  C38 C  0 1 Y N N N N N 19.857 18.420 4.840  2.344  -0.533 1.561  C8  KSB 38 
KSB C9  C39 C  0 1 Y N N N N N 21.113 17.960 5.210  2.269  -1.311 2.720  C9  KSB 39 
KSB N1  N1  N  1 1 Y N N N N N 20.647 18.443 2.447  -0.008 -0.577 1.350  N1  KSB 40 
KSB N10 N2  N  0 1 Y N N N N N 19.134 14.623 -0.678 -3.237 3.732  2.437  N10 KSB 41 
KSB N11 N3  N  0 1 Y N N N N N 18.372 19.286 -3.513 -4.755 2.163  -2.608 N11 KSB 42 
KSB N12 N4  N  1 1 Y N N N N N 19.399 19.219 -0.896 -2.816 0.786  -1.256 N12 KSB 43 
KSB N2  N5  N  1 1 Y N N N N N 18.474 19.226 1.638  0.058  1.121  -0.788 N2  KSB 44 
KSB N3  N6  N  0 1 Y N N N N N 16.528 19.401 6.099  4.836  1.072  -0.714 N3  KSB 45 
KSB N4  N7  N  0 1 Y N N N N N 18.904 18.488 7.089  4.769  -0.627 1.504  N4  KSB 46 
KSB N5  N8  N  1 1 Y N N N N N 20.532 20.632 1.000  -1.006 -1.512 -1.183 N5  KSB 47 
KSB N6  N9  N  0 1 Y N N N N N 21.607 23.217 1.081  -0.783 -3.870 -2.545 N6  KSB 48 
KSB N7  N10 N  0 1 Y N N N N N 24.157 18.969 -1.308 -4.412 -3.351 1.548  N7  KSB 49 
KSB N74 N11 N  0 1 N N N N N N 13.898 19.746 11.232 10.622 0.795  -1.424 N74 KSB 50 
KSB N8  N12 N  1 1 Y N N N N N 21.687 18.725 -0.065 -2.806 -1.250 0.850  N8  KSB 51 
KSB N9  N13 N  1 1 Y N N N N N 19.724 17.146 0.352  -2.059 1.567  1.251  N9  KSB 52 
KSB RU  RU1 RU 0 0 N N N N N N 20.073 18.879 0.766  -1.452 0.045  0.052  RU  KSB 53 
KSB H1  H1  H  0 1 N N N N N N 23.047 17.401 4.499  0.915  -2.266 4.075  H1  KSB 54 
KSB H2  H2  H  0 1 N N N N N N 22.622 17.816 2.110  -1.081 -1.635 2.782  H2  KSB 55 
KSB H3  H3  H  0 1 N N N N N N 18.956 18.211 9.719  7.130  -1.510 2.287  H3  KSB 56 
KSB H4  H4  H  0 1 N N N N N N 14.658 19.853 7.897  7.257  1.504  -1.684 H4  KSB 57 
KSB H5  H5  H  0 1 N N N N N N 17.065 18.681 11.238 9.233  -0.989 1.194  H5  KSB 58 
KSB H6  H6  H  0 1 N N N N N N 17.250 19.829 0.060  -0.925 2.310  -2.184 H6  KSB 59 
KSB H7  H7  H  0 1 N N N N N N 18.899 21.441 2.048  0.487  -0.795 -2.445 H7  KSB 60 
KSB H8  H8  H  0 1 N N N N N N 19.854 23.709 2.110  0.684  -2.925 -3.671 H8  KSB 61 
KSB H9  H9  H  0 1 N N N N N N 24.013 23.388 -0.133 -2.417 -5.786 -1.682 H9  KSB 62 
KSB H10 H10 H  0 1 N N N N N N 25.167 21.474 -1.206 -4.011 -5.556 0.116  H10 KSB 63 
KSB H11 H11 H  0 1 N N N N N N 23.948 16.926 -1.716 -5.214 -2.079 2.981  H11 KSB 64 
KSB H12 H12 H  0 1 N N N N N N 21.747 16.699 -0.623 -3.770 -0.187 2.356  H12 KSB 65 
KSB H13 H13 H  0 1 N N N N N N 15.313 20.329 1.468  1.140  3.330  -3.040 H13 KSB 66 
KSB H14 H14 H  0 1 N N N N N N 20.370 16.137 2.083  -0.920 1.410  2.986  H14 KSB 67 
KSB H15 H15 H  0 1 N N N N N N 19.811 13.907 1.175  -1.988 3.358  4.050  H15 KSB 68 
KSB H16 H16 H  0 1 N N N N N N 18.152 14.724 -3.194 -5.113 4.906  0.956  H16 KSB 69 
KSB H17 H17 H  0 1 N N N N N N 17.789 16.820 -4.468 -5.780 4.218  -1.258 H17 KSB 70 
KSB H18 H18 H  0 1 N N N N N N 18.595 21.357 -3.324 -4.451 0.806  -4.148 H18 KSB 71 
KSB H19 H19 H  0 1 N N N N N N 19.531 21.307 -1.044 -2.706 -0.437 -2.931 H19 KSB 72 
KSB H20 H20 H  0 1 N N N N N N 15.378 20.037 3.927  3.329  2.607  -2.118 H20 KSB 73 
KSB H21 H21 H  0 1 N N N N N N 21.347 17.762 6.246  3.160  -1.608 3.246  H21 KSB 74 
# 
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 
KSB N11 C35 DOUB Y N 1  
KSB N11 C37 SING Y N 2  
KSB C34 C35 SING Y N 3  
KSB C34 C33 DOUB Y N 4  
KSB C35 C36 SING Y N 5  
KSB C37 C38 DOUB Y N 6  
KSB C33 C32 SING Y N 7  
KSB C36 C29 SING Y N 8  
KSB C36 N12 DOUB Y N 9  
KSB C38 N12 SING Y N 10 
KSB C32 C29 DOUB Y N 11 
KSB C32 N10 SING Y N 12 
KSB N7  C27 DOUB Y N 13 
KSB N7  C25 SING Y N 14 
KSB C27 C28 SING Y N 15 
KSB C29 N9  SING Y N 16 
KSB N12 RU  SING N N 17 
KSB C25 C24 DOUB Y N 18 
KSB C25 C26 SING Y N 19 
KSB C24 C23 SING Y N 20 
KSB N10 C31 DOUB Y N 21 
KSB C28 N8  DOUB Y N 22 
KSB C26 N8  SING Y N 23 
KSB C26 C19 DOUB Y N 24 
KSB C23 C22 DOUB Y N 25 
KSB N8  RU  SING N N 26 
KSB N9  RU  SING N N 27 
KSB N9  C30 DOUB Y N 28 
KSB C19 C22 SING Y N 29 
KSB C19 N5  SING Y N 30 
KSB C22 N6  SING Y N 31 
KSB C31 C30 SING Y N 32 
KSB RU  N5  SING N N 33 
KSB RU  N2  SING N N 34 
KSB RU  N1  SING N N 35 
KSB N5  C20 DOUB Y N 36 
KSB N6  C21 DOUB Y N 37 
KSB C2  N2  DOUB Y N 38 
KSB C2  C3  SING Y N 39 
KSB C20 C21 SING Y N 40 
KSB N2  C1  SING Y N 41 
KSB C3  C4  DOUB Y N 42 
KSB N1  C12 DOUB Y N 43 
KSB N1  C10 SING Y N 44 
KSB C12 C11 SING Y N 45 
KSB C1  C10 DOUB Y N 46 
KSB C1  C5  SING Y N 47 
KSB C4  C5  SING Y N 48 
KSB C10 C8  SING Y N 49 
KSB C5  C6  DOUB Y N 50 
KSB C11 C9  DOUB Y N 51 
KSB C8  C9  SING Y N 52 
KSB C8  C7  DOUB Y N 53 
KSB C6  C7  SING Y N 54 
KSB C6  N3  SING Y N 55 
KSB C7  N4  SING Y N 56 
KSB N3  C15 DOUB Y N 57 
KSB N4  C13 DOUB Y N 58 
KSB C15 C13 SING Y N 59 
KSB C15 C16 SING Y N 60 
KSB C13 C14 SING Y N 61 
KSB C16 C17 DOUB Y N 62 
KSB C14 C18 DOUB Y N 63 
KSB C17 C18 SING Y N 64 
KSB C17 C39 SING N N 65 
KSB C39 N74 TRIP N N 66 
KSB C11 H1  SING N N 67 
KSB C12 H2  SING N N 68 
KSB C14 H3  SING N N 69 
KSB C16 H4  SING N N 70 
KSB C18 H5  SING N N 71 
KSB C2  H6  SING N N 72 
KSB C20 H7  SING N N 73 
KSB C21 H8  SING N N 74 
KSB C23 H9  SING N N 75 
KSB C24 H10 SING N N 76 
KSB C27 H11 SING N N 77 
KSB C28 H12 SING N N 78 
KSB C3  H13 SING N N 79 
KSB C30 H14 SING N N 80 
KSB C31 H15 SING N N 81 
KSB C33 H16 SING N N 82 
KSB C34 H17 SING N N 83 
KSB C37 H18 SING N N 84 
KSB C38 H19 SING N N 85 
KSB C4  H20 SING N N 86 
KSB C9  H21 SING N N 87 
# 
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 
KSB InChI            InChI                1.03  "InChI=1S/C19H9N5.2C10H6N4.Ru/c20-10-11-5-6-14-15(9-11)24-19-13-4-2-8-22-17(13)16-12(18(19)23-14)3-1-7-21-16;2*1-2-8-10(14-6-4-12-8)9-7(1)11-3-5-13-9;/h1-9H;2*1-6H;/q;;;+6" 
KSB InChIKey         InChI                1.03  HNFPSJMHTKCUIN-UHFFFAOYSA-N                                                                                                                                                  
KSB SMILES_CANONICAL CACTVS               3.385 "N#Cc1ccc2nc3c4ccc[n+]5c4c6c(ccc[n+]6[Ru]578([n+]9ccnc%10ccc%11ncc[n+]7c%11c9%10)[n+]%12ccnc%13ccc%14ncc[n+]8c%14c%12%13)c3nc2c1"                                            
KSB SMILES           CACTVS               3.385 "N#Cc1ccc2nc3c4ccc[n+]5c4c6c(ccc[n+]6[Ru]578([n+]9ccnc%10ccc%11ncc[n+]7c%11c9%10)[n+]%12ccnc%13ccc%14ncc[n+]8c%14c%12%13)c3nc2c1"                                            
KSB SMILES_CANONICAL "OpenEye OEToolkits" 2.0.5 "c1cc2c3c(c4ccc[n+]5c4c2[n+](c1)[Ru]567([n+]8ccnc9c8c1[n+]6ccnc1cc9)[n+]1ccnc2c1c1[n+]7ccnc1cc2)nc1cc(ccc1n3)C#N"                                                            
KSB SMILES           "OpenEye OEToolkits" 2.0.5 "c1cc2c3c(c4ccc[n+]5c4c2[n+](c1)[Ru]567([n+]8ccnc9c8c1[n+]6ccnc1cc9)[n+]1ccnc2c1c1[n+]7ccnc1cc2)nc1cc(ccc1n3)C#N"                                                            
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
KSB "Create component"   2016-08-23 RCSB 
KSB "Modify name"        2016-11-24 EBI  
KSB "Initial release"    2018-01-17 RCSB 
KSB "Obsolete component" 2019-08-13 EBI  
KSB "Other modification" 2023-12-21 EBI  
KSB "Modify name"        2024-01-03 PDBE 
# 
