data_KM3
#

_chem_comp.id                                   KM3
_chem_comp.name                                 "{N-(4-{bis[(pyridin-2-yl-kappaN)methyl]amino-kappaN}butyl)-5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanamide}iron(3+)"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C26 H36 Fe N6 O2 S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   3
_chem_comp.pdbx_initial_date                    2020-01-31
_chem_comp.pdbx_modified_date                   2021-01-29
_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                       552.513
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    KM3
_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       6VOB
_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.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
KM3  O3   O1   O   0  1  N  N  N  14.268  29.442   -8.207  10.668  -1.176   2.515  O3   KM3   1  
KM3  C9   C1   C   0  1  N  N  N  15.490  29.387   -8.448  10.587  -0.520   1.495  C9   KM3   2  
KM3  N1   N1   N   0  1  N  N  N  16.450  29.553   -7.523  11.409  -0.688   0.450  N1   KM3   3  
KM3  N2   N2   N   0  1  N  N  N  16.005  29.210   -9.691   9.663   0.433   1.310  N2   KM3   4  
KM3  C10  C2   C   0  1  N  N  S  17.465  29.229   -9.641   9.845   1.027  -0.024  C10  KM3   5  
KM3  C8   C3   C   0  1  N  N  R  17.802  29.494   -8.095  11.037   0.261  -0.611  C8   KM3   6  
KM3  C7   C4   C   0  1  N  N  N  18.564  28.236   -7.614  10.661  -0.523  -1.884  C7   KM3   7  
KM3  S1   S1   S   0  1  N  N  N  17.969  26.822   -8.583   8.852  -0.783  -1.680  S1   KM3   8  
KM3  C6   C5   C   0  1  N  N  S  18.103  27.906  -10.045   8.559   0.826  -0.848  C6   KM3   9  
KM3  C5   C6   C   0  1  N  N  N  17.522  27.236  -11.291   7.335   0.746   0.067  C5   KM3  10  
KM3  C4   C7   C   0  1  N  N  N  18.420  26.130  -11.922   6.066   0.672  -0.784  C4   KM3  11  
KM3  C3   C8   C   0  1  N  N  N  17.721  25.480  -13.143   4.842   0.592   0.132  C3   KM3  12  
KM3  C2   C9   C   0  1  N  N  N  18.609  24.347  -13.731   3.573   0.518  -0.719  C2   KM3  13  
KM3  C01  C10  C   0  1  N  N  N  19.862  24.890  -14.401   2.368   0.439   0.182  C01  KM3  14  
KM3  C25  C11  C   0  1  N  N  N  23.190  25.309  -14.441  -1.309   0.215  -0.324  C25  KM3  15  
KM3  N6   N3   N   0  1  N  N  N  21.008  24.135  -14.229   1.132   0.366  -0.350  N6   KM3  16  
KM3  C26  C12  C   0  1  N  N  N  24.482  25.303  -15.284  -2.533   0.134   0.591  C26  KM3  17  
KM3  O1   O2   O   0  1  N  N  N  19.904  26.012  -15.037   2.510   0.440   1.387  O1   KM3  18  
KM3  C23  C13  C   0  1  N  N  N  24.504  26.500  -16.232  -3.802   0.061  -0.260  C23  KM3  19  
KM3  C24  C14  C   0  1  N  N  N  22.186  24.366  -15.103  -0.040   0.288   0.527  C24  KM3  20  
KM3  N3   N4   N   1  1  N  N  N  25.782  26.795  -16.995  -4.977  -0.017   0.619  N3   KM3  21  
KM3  C11  C15  C   0  1  N  N  N  26.348  25.521  -17.547  -5.203  -1.339   1.212  C11  KM3  22  
KM3  C17  C16  C   0  1  N  N  N  25.277  27.572  -18.150  -5.363   1.261   1.227  C17  KM3  23  
KM3  FE1  FE1  FE  0  0  N  N  N  27.192  27.847  -15.856  -6.759  -0.122  -0.195  FE1  KM3  24  
KM3  N4   N5   N   1  1  Y  N  N  27.818  25.983  -15.723  -7.102  -1.903  -0.344  N4   KM3  25  
KM3  C16  C17  C   0  1  Y  N  N  28.683  25.519  -14.843  -7.912  -2.711  -0.963  C16  KM3  26  
KM3  C15  C18  C   0  1  Y  N  N  29.073  24.262  -14.837  -7.849  -4.082  -0.813  C15  KM3  27  
KM3  C14  C19  C   0  1  Y  N  N  28.626  23.422  -15.646  -6.876  -4.589   0.035  C14  KM3  28  
KM3  C13  C20  C   0  1  Y  N  N  27.792  23.725  -16.497  -6.033  -3.717   0.683  C13  KM3  29  
KM3  C12  C21  C   0  1  Y  N  N  27.380  24.967  -16.577  -6.111  -2.337   0.498  C12  KM3  30  
KM3  N5   N6   N   1  1  Y  N  N  25.921  29.253  -16.567  -7.312   1.607  -0.339  N5   KM3  31  
KM3  C18  C22  C   0  1  Y  N  N  25.039  29.003  -17.685  -6.384   2.149   0.520  C18  KM3  32  
KM3  C22  C23  C   0  1  Y  N  N  25.842  30.529  -16.031  -8.212   2.314  -0.956  C22  KM3  33  
KM3  C21  C24  C   0  1  Y  N  N  24.958  31.539  -16.508  -8.309   3.684  -0.807  C21  KM3  34  
KM3  C20  C25  C   0  1  Y  N  N  24.103  31.268  -17.586  -7.398   4.301   0.037  C20  KM3  35  
KM3  C19  C26  C   0  1  Y  N  N  24.135  29.988  -18.163  -6.457   3.534   0.682  C19  KM3  36  
KM3  H1   H1   H   0  1  N  N  N  16.265  29.701   -6.551  12.133  -1.332   0.401  H1   KM3  37  
KM3  H2   H2   H   0  1  N  N  N  15.463  29.085  -10.522   8.985   0.692   1.954  H2   KM3  38  
KM3  H3   H3   H   0  1  N  N  N  17.874  30.051  -10.247  10.082   2.087   0.064  H3   KM3  39  
KM3  H4   H4   H   0  1  N  N  N  18.383  30.418   -7.958  11.860   0.945  -0.819  H4   KM3  40  
KM3  H5   H5   H   0  1  N  N  N  18.368  28.066   -6.545  10.868   0.067  -2.777  H5   KM3  41  
KM3  H6   H6   H   0  1  N  N  N  19.644  28.370   -7.772  11.190  -1.475  -1.922  H6   KM3  42  
KM3  H7   H7   H   0  1  N  N  N  19.181  28.064  -10.199   8.442   1.624  -1.582  H7   KM3  43  
KM3  H8   H8   H   0  1  N  N  N  17.354  28.014  -12.050   7.406  -0.145   0.691  H8   KM3  44  
KM3  H9   H9   H   0  1  N  N  N  16.560  26.779  -11.016   7.297   1.631   0.701  H9   KM3  45  
KM3  H10  H10  H   0  1  N  N  N  18.621  25.355  -11.167   5.995   1.563  -1.408  H10  KM3  46  
KM3  H11  H11  H   0  1  N  N  N  19.370  26.580  -12.248   6.104  -0.213  -1.418  H11  KM3  47  
KM3  H12  H12  H   0  1  N  N  N  17.551  26.246  -13.914   4.913  -0.299   0.756  H12  KM3  48  
KM3  H13  H13  H   0  1  N  N  N  16.756  25.058  -12.827   4.804   1.477   0.766  H13  KM3  49  
KM3  H14  H14  H   0  1  N  N  N  18.023  23.788  -14.475   3.502   1.409  -1.343  H14  KM3  50  
KM3  H15  H15  H   0  1  N  N  N  18.907  23.671  -12.916   3.611  -0.367  -1.353  H15  KM3  51  
KM3  H16  H16  H   0  1  N  N  N  23.409  24.963  -13.420  -1.271  -0.671  -0.959  H16  KM3  52  
KM3  H17  H17  H   0  1  N  N  N  22.775  26.327  -14.402  -1.380   1.106  -0.948  H17  KM3  53  
KM3  H18  H18  H   0  1  N  N  N  21.043  23.434  -13.517   1.018   0.364  -1.313  H18  KM3  54  
KM3  H19  H19  H   0  1  N  N  N  24.527  24.374  -15.872  -2.461  -0.757   1.215  H19  KM3  55  
KM3  H20  H20  H   0  1  N  N  N  25.353  25.355  -14.614  -2.571   1.020   1.225  H20  KM3  56  
KM3  H21  H21  H   0  1  N  N  N  24.269  27.393  -15.634  -3.873   0.952  -0.884  H21  KM3  57  
KM3  H22  H22  H   0  1  N  N  N  23.711  26.339  -16.977  -3.764  -0.825  -0.894  H22  KM3  58  
KM3  H23  H23  H   0  1  N  N  N  21.848  24.810  -16.051  -0.078   1.174   1.161  H23  KM3  59  
KM3  H24  H24  H   0  1  N  N  N  22.678  23.403  -15.304   0.032  -0.603   1.151  H24  KM3  60  
KM3  H25  H25  H   0  1  N  N  N  25.539  24.788  -17.681  -4.229  -1.812   1.335  H25  KM3  61  
KM3  H26  H26  H   0  1  N  N  N  26.826  25.721  -18.517  -5.610  -1.183   2.211  H26  KM3  62  
KM3  H27  H27  H   0  1  N  N  N  24.334  27.135  -18.511  -5.751   1.045   2.222  H27  KM3  63  
KM3  H28  H28  H   0  1  N  N  N  26.020  27.561  -18.961  -4.455   1.848   1.359  H28  KM3  64  
KM3  H29  H29  H   0  1  N  N  N  29.085  26.193  -14.102  -8.662  -2.293  -1.618  H29  KM3  65  
KM3  H30  H30  H   0  1  N  N  N  29.804  23.946  -14.108  -8.531  -4.735  -1.336  H30  KM3  66  
KM3  H31  H31  H   0  1  N  N  N  28.981  22.403  -15.597  -6.782  -5.655   0.185  H31  KM3  67  
KM3  H32  H32  H   0  1  N  N  N  27.403  22.976  -17.171  -5.278  -4.117   1.343  H32  KM3  68  
KM3  H33  H33  H   0  1  N  N  N  26.490  30.772  -15.202  -8.911   1.811  -1.609  H33  KM3  69  
KM3  H34  H34  H   0  1  N  N  N  24.946  32.512  -16.040  -9.065   4.252  -1.328  H34  KM3  70  
KM3  H35  H35  H   0  1  N  N  N  23.434  32.027  -17.964  -7.427   5.371   0.185  H35  KM3  71  
KM3  H36  H36  H   0  1  N  N  N  23.466  29.751  -18.977  -5.749   4.019   1.338  H36  KM3  72  
#   #
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
KM3  C19  C18  DOUB  Y  N   1  
KM3  C19  C20  SING  Y  N   2  
KM3  C17  C18  SING  N  N   3  
KM3  C17  N3   SING  N  N   4  
KM3  C18  N5   SING  Y  N   5  
KM3  C20  C21  DOUB  Y  N   6  
KM3  C11  N3   SING  N  N   7  
KM3  C11  C12  SING  N  N   8  
KM3  N3   C23  SING  N  N   9  
KM3  N3   FE1  SING  N  N  10  
KM3  C12  C13  DOUB  Y  N  11  
KM3  C12  N4   SING  Y  N  12  
KM3  N5   C22  DOUB  Y  N  13  
KM3  N5   FE1  SING  N  N  14  
KM3  C21  C22  SING  Y  N  15  
KM3  C13  C14  SING  Y  N  16  
KM3  C23  C26  SING  N  N  17  
KM3  FE1  N4   SING  N  N  18  
KM3  N4   C16  DOUB  Y  N  19  
KM3  C14  C15  DOUB  Y  N  20  
KM3  C26  C25  SING  N  N  21  
KM3  C24  C25  SING  N  N  22  
KM3  C24  N6   SING  N  N  23  
KM3  O1   C01  DOUB  N  N  24  
KM3  C16  C15  SING  Y  N  25  
KM3  C01  N6   SING  N  N  26  
KM3  C01  C2   SING  N  N  27  
KM3  C2   C3   SING  N  N  28  
KM3  C3   C4   SING  N  N  29  
KM3  C4   C5   SING  N  N  30  
KM3  C5   C6   SING  N  N  31  
KM3  C6   C10  SING  N  N  32  
KM3  C6   S1   SING  N  N  33  
KM3  N2   C10  SING  N  N  34  
KM3  N2   C9   SING  N  N  35  
KM3  C10  C8   SING  N  N  36  
KM3  S1   C7   SING  N  N  37  
KM3  C9   O3   DOUB  N  N  38  
KM3  C9   N1   SING  N  N  39  
KM3  C8   C7   SING  N  N  40  
KM3  C8   N1   SING  N  N  41  
KM3  N1   H1   SING  N  N  42  
KM3  N2   H2   SING  N  N  43  
KM3  C10  H3   SING  N  N  44  
KM3  C8   H4   SING  N  N  45  
KM3  C7   H5   SING  N  N  46  
KM3  C7   H6   SING  N  N  47  
KM3  C6   H7   SING  N  N  48  
KM3  C5   H8   SING  N  N  49  
KM3  C5   H9   SING  N  N  50  
KM3  C4   H10  SING  N  N  51  
KM3  C4   H11  SING  N  N  52  
KM3  C3   H12  SING  N  N  53  
KM3  C3   H13  SING  N  N  54  
KM3  C2   H14  SING  N  N  55  
KM3  C2   H15  SING  N  N  56  
KM3  C25  H16  SING  N  N  57  
KM3  C25  H17  SING  N  N  58  
KM3  N6   H18  SING  N  N  59  
KM3  C26  H19  SING  N  N  60  
KM3  C26  H20  SING  N  N  61  
KM3  C23  H21  SING  N  N  62  
KM3  C23  H22  SING  N  N  63  
KM3  C24  H23  SING  N  N  64  
KM3  C24  H24  SING  N  N  65  
KM3  C11  H25  SING  N  N  66  
KM3  C11  H26  SING  N  N  67  
KM3  C17  H27  SING  N  N  68  
KM3  C17  H28  SING  N  N  69  
KM3  C16  H29  SING  N  N  70  
KM3  C15  H30  SING  N  N  71  
KM3  C14  H31  SING  N  N  72  
KM3  C13  H32  SING  N  N  73  
KM3  C22  H33  SING  N  N  74  
KM3  C21  H34  SING  N  N  75  
KM3  C20  H35  SING  N  N  76  
KM3  C19  H36  SING  N  N  77  
#   #
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
KM3  SMILES            ACDLabs               12.01  "O=C1NC2C(N1)C(SC2)CCCCC(NCCCC[N+]35[Fe]([n+]4ccccc4C3)[n+]6ccccc6C5)=O"  
KM3  InChI             InChI                 1.03   "InChI=1S/C26H36N6O2S.Fe/c33-24(12-2-1-11-23-25-22(19-35-23)30-26(34)31-25)29-15-7-8-16-32(17-20-9-3-5-13-27-20)18-21-10-4-6-14-28-21;/h3-6,9-10,13-14,22-23,25H,1-2,7-8,11-12,15-19H2,(H,29,33)(H2,30,31,34);/q;+3/t22-,23-,25-;/m0./s1"  
KM3  InChIKey          InChI                 1.03   BLSJCACNFKSTBA-LTWAPREQSA-N  
KM3  SMILES_CANONICAL  CACTVS                3.385  "O=C(CCCC[C@@H]1SC[C@@H]2NC(=O)N[C@H]12)NCCCCN3Cc4cccc[n+]4[Fe][n+]5ccccc5C3"  
KM3  SMILES            CACTVS                3.385  "O=C(CCCC[CH]1SC[CH]2NC(=O)N[CH]12)NCCCCN3Cc4cccc[n+]4[Fe][n+]5ccccc5C3"  
KM3  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1cc[n+]2c(c1)C[N+]3([Fe]2[n+]4ccccc4C3)CCCCNC(=O)CCCC[C@H]5[C@@H]6[C@H](CS5)NC(=O)N6"  
KM3  SMILES            "OpenEye OEToolkits"  2.0.7  "c1cc[n+]2c(c1)C[N+]3([Fe]2[n+]4ccccc4C3)CCCCNC(=O)CCCCC5C6C(CS5)NC(=O)N6"  
#
_pdbx_chem_comp_identifier.comp_id          KM3
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          ACDLabs
_pdbx_chem_comp_identifier.program_version  12.01
_pdbx_chem_comp_identifier.identifier       "{N-(4-{bis[(pyridin-2-yl-kappaN)methyl]amino-kappaN}butyl)-5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanamide}iron(3+)"
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
KM3  "Create component"  2020-01-31  RCSB  
KM3  "Initial release"   2021-02-03  RCSB  
##
