data_YED
#

_chem_comp.id                                   YED
_chem_comp.name                                 "(3S,6S,9S,15aR)-9-[(2S)-butan-2-yl]-3-(6,6-dihydroxyoctyl)-6-[(1-methoxy-1H-indol-3-yl)methyl]octahydro-2H-pyrido[1,2-a][1,4,7,10]tetraazacyclododecine-1,4,7,10(3H,12H)-tetrone"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C34 H51 N5 O7"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-02-23
_chem_comp.pdbx_modified_date                   2021-04-30
_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                       641.798
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    YED
_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       7LTG
_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
YED  O6   O1   O  0  1  N  N  N  75.884  36.486   0.605  -3.353  -0.694  -1.563  O6   YED   1  
YED  C10  C1   C  0  1  N  N  N  75.473  35.434   1.059  -3.237  -0.459  -0.379  C10  YED   2  
YED  N1   N1   N  0  1  N  N  N  76.283  34.387   1.458  -3.431  -1.445   0.522  N1   YED   3  
YED  C11  C2   C  0  1  N  N  S  77.765  34.487   1.684  -3.023  -2.812   0.144  C11  YED   4  
YED  C12  C3   C  0  1  N  N  S  78.297  33.670   2.913  -3.563  -3.153  -1.247  C12  YED   5  
YED  C14  C4   C  0  1  N  N  N  77.616  34.218   4.217  -5.091  -3.226  -1.197  C14  YED   6  
YED  C15  C5   C  0  1  N  N  N  77.874  35.687   4.596  -5.637  -3.443  -2.609  C15  YED   7  
YED  C13  C6   C  0  1  N  N  N  79.832  33.584   3.030  -3.003  -4.505  -1.694  C13  YED   8  
YED  C16  C7   C  0  1  N  N  N  78.437  34.164   0.295  -1.517  -2.829   0.130  C16  YED   9  
YED  O5   O2   O  0  1  N  N  N  79.185  35.027  -0.145  -0.927  -1.770   0.147  O5   YED  10  
YED  N2   N2   N  0  1  N  N  N  78.247  32.952  -0.448  -0.799  -3.961   0.100  N2   YED  11  
YED  C32  C8   C  0  1  N  N  N  79.035  32.683  -1.748  -1.454  -5.260  -0.060  C32  YED  12  
YED  C31  C9   C  0  1  N  N  N  79.455  31.178  -1.918  -0.931  -6.240   0.991  C31  YED  13  
YED  C30  C10  C  0  1  N  N  N  78.281  30.191  -1.681   0.599  -6.267   0.952  C30  YED  14  
YED  C29  C11  C  0  1  N  N  N  77.640  30.399  -0.307   1.137  -4.873   1.284  C29  YED  15  
YED  C17  C12  C  0  1  N  N  R  77.225  31.889  -0.051   0.660  -3.882   0.221  C17  YED  16  
YED  C18  C13  C  0  1  N  N  N  75.903  32.314  -0.815   1.047  -2.482   0.627  C18  YED  17  
YED  O4   O3   O  0  1  N  N  N  75.853  33.265  -1.580   1.918  -1.888   0.026  O4   YED  18  
YED  N3   N3   N  0  1  N  N  N  74.729  31.609  -0.558   0.409  -1.894   1.674  N3   YED  19  
YED  C19  C14  C  0  1  N  N  S  73.420  32.115  -1.040   0.313  -0.417   1.657  C19  YED  20  
YED  C20  C15  C  0  1  N  N  N  72.343  31.233  -0.353   1.207   0.148   0.552  C20  YED  21  
YED  C21  C16  C  0  1  N  N  N  70.958  31.530  -0.905   2.673   0.040   0.975  C21  YED  22  
YED  C22  C17  C  0  1  N  N  N  69.979  30.578  -0.193   3.572   0.467  -0.186  C22  YED  23  
YED  C23  C18  C  0  1  N  N  N  68.578  30.784  -0.676   5.038   0.358   0.237  C23  YED  24  
YED  C24  C19  C  0  1  N  N  N  67.584  29.817   0.037   5.938   0.786  -0.924  C24  YED  25  
YED  C25  C20  C  0  1  N  N  N  66.195  29.606  -0.719   7.404   0.677  -0.500  C25  YED  26  
YED  O2   O4   O  0  1  N  N  N  65.654  30.818  -1.035   7.698  -0.675  -0.143  O2   YED  27  
YED  C26  C21  C  0  1  N  N  N  65.146  28.721   0.097   8.304   1.104  -1.662  C26  YED  28  
YED  C27  C22  C  0  1  N  N  N  64.928  29.053   1.578   9.770   0.996  -1.238  C27  YED  29  
YED  O1   O5   O  0  1  N  N  N  66.359  29.055  -1.999   7.640   1.528   0.623  O1   YED  30  
YED  C28  C23  C  0  1  N  N  N  73.228  33.585  -0.591  -1.121  -0.050   1.390  C28  YED  31  
YED  O3   O6   O  0  1  N  N  N  72.684  34.424  -1.302  -2.002  -0.611   2.007  O3   YED  32  
YED  N4   N4   N  0  1  N  N  N  73.655  33.881   0.712  -1.451   0.892   0.475  N4   YED  33  
YED  C9   C24  C  0  1  N  N  S  73.950  35.230   1.225  -2.873   0.932   0.075  C9   YED  34  
YED  C8   C25  C  0  1  N  N  N  73.505  35.331   2.716  -3.063   1.925  -1.073  C8   YED  35  
YED  C7   C26  C  0  1  Y  N  N  73.892  36.607   3.390  -2.814   3.325  -0.573  C7   YED  36  
YED  C33  C27  C  0  1  Y  N  N  73.914  37.891   2.826  -3.740   4.193  -0.135  C33  YED  37  
YED  N    N5   N  0  1  Y  N  N  74.282  38.798   3.879  -3.141   5.365   0.238  N    YED  38  
YED  O    O7   O  0  1  N  N  N  74.498  40.159   3.833  -3.820   6.499   0.748  O    YED  39  
YED  C    C28  C  0  1  N  N  N  74.319  40.862   2.597  -5.235   6.331   0.851  C    YED  40  
YED  C6   C29  C  0  1  Y  N  N  74.273  36.717   4.804  -1.516   3.994  -0.466  C6   YED  41  
YED  C1   C30  C  0  1  Y  N  N  74.490  38.095   5.085  -1.781   5.278   0.044  C1   YED  42  
YED  C5   C31  C  0  1  Y  N  N  74.426  35.778   5.823  -0.203   3.617  -0.756  C5   YED  43  
YED  C4   C32  C  0  1  Y  N  N  74.774  36.244   7.102   0.819   4.498  -0.538  C4   YED  44  
YED  C3   C33  C  0  1  Y  N  N  74.967  37.640   7.362   0.563   5.765  -0.032  C3   YED  45  
YED  C2   C34  C  0  1  Y  N  N  74.831  38.596   6.355  -0.725   6.160   0.254  C2   YED  46  
YED  H1   H1   H  0  1  N  N  N  75.851  33.498   1.607  -3.824  -1.261   1.389  H1   YED  47  
YED  H2   H2   H  0  1  N  N  N  77.988  35.543   1.895  -3.399  -3.528   0.875  H2   YED  48  
YED  H3   H3   H  0  1  N  N  N  77.932  32.640   2.782  -3.259  -2.382  -1.954  H3   YED  49  
YED  H4   H4   H  0  1  N  N  N  76.529  34.096   4.096  -5.394  -4.055  -0.558  H4   YED  50  
YED  H5   H5   H  0  1  N  N  N  77.964  33.597   5.055  -5.486  -2.293  -0.794  H5   YED  51  
YED  H6   H6   H  0  1  N  N  N  77.336  35.926   5.525  -6.725  -3.495  -2.574  H6   YED  52  
YED  H7   H7   H  0  1  N  N  N  78.952  35.843   4.746  -5.333  -2.614  -3.248  H7   YED  53  
YED  H8   H8   H  0  1  N  N  N  77.518  36.342   3.787  -5.242  -4.376  -3.012  H8   YED  54  
YED  H9   H9   H  0  1  N  N  N  80.100  32.994   3.919  -3.368  -5.288  -1.029  H9   YED  55  
YED  H10  H10  H  0  1  N  N  N  80.242  33.100   2.131  -3.327  -4.713  -2.713  H10  YED  56  
YED  H11  H11  H  0  1  N  N  N  80.250  34.597   3.123  -1.914  -4.476  -1.658  H11  YED  57  
YED  H12  H12  H  0  1  N  N  N  79.945  33.301  -1.739  -2.530  -5.140   0.061  H12  YED  58  
YED  H13  H13  H  0  1  N  N  N  78.406  32.969  -2.604  -1.242  -5.652  -1.055  H13  YED  59  
YED  H14  H14  H  0  1  N  N  N  79.834  31.033  -2.940  -1.263  -5.923   1.980  H14  YED  60  
YED  H15  H15  H  0  1  N  N  N  80.253  30.953  -1.196  -1.317  -7.237   0.781  H15  YED  61  
YED  H16  H16  H  0  1  N  N  N  77.519  30.349  -2.458   0.968  -6.984   1.686  H16  YED  62  
YED  H17  H17  H  0  1  N  N  N  78.662  29.161  -1.745   0.932  -6.559  -0.043  H17  YED  63  
YED  H18  H18  H  0  1  N  N  N  76.742  29.767  -0.238   0.769  -4.564   2.262  H18  YED  64  
YED  H19  H19  H  0  1  N  N  N  78.361  30.097   0.467   2.227  -4.898   1.296  H19  YED  65  
YED  H20  H20  H  0  1  N  N  N  77.027  31.995   1.026   1.117  -4.123  -0.738  H20  YED  66  
YED  H21  H21  H  0  1  N  N  N  74.769  30.753  -0.043   0.033  -2.418   2.398  H21  YED  67  
YED  H22  H22  H  0  1  N  N  N  73.339  32.035  -2.134   0.622  -0.016   2.623  H22  YED  68  
YED  H23  H23  H  0  1  N  N  N  72.580  30.174  -0.530   1.051  -0.418  -0.366  H23  YED  69  
YED  H24  H24  H  0  1  N  N  N  72.350  31.435   0.728   0.955   1.195   0.380  H24  YED  70  
YED  H25  H25  H  0  1  N  N  N  70.685  32.576  -0.700   2.852   0.689   1.832  H25  YED  71  
YED  H26  H26  H  0  1  N  N  N  70.937  31.352  -1.990   2.897  -0.992   1.248  H26  YED  72  
YED  H27  H27  H  0  1  N  N  N  70.279  29.539  -0.394   3.392  -0.182  -1.043  H27  YED  73  
YED  H28  H28  H  0  1  N  N  N  70.017  30.768   0.890   3.348   1.498  -0.459  H28  YED  74  
YED  H29  H29  H  0  1  N  N  N  68.277  31.822  -0.471   5.218   1.008   1.094  H29  YED  75  
YED  H30  H30  H  0  1  N  N  N  68.542  30.599  -1.760   5.262  -0.673   0.510  H30  YED  76  
YED  H31  H31  H  0  1  N  N  N  67.371  30.222   1.037   5.758   0.136  -1.781  H31  YED  77  
YED  H32  H32  H  0  1  N  N  N  68.072  28.836   0.135   5.714   1.817  -1.196  H32  YED  78  
YED  H33  H33  H  0  1  N  N  N  65.488  31.309  -0.239   7.560  -1.310  -0.859  H33  YED  79  
YED  H34  H34  H  0  1  N  N  N  64.173  28.818  -0.407   8.124   0.455  -2.518  H34  YED  80  
YED  H35  H35  H  0  1  N  N  N  65.485  27.676   0.042   8.080   2.136  -1.934  H35  YED  81  
YED  H36  H36  H  0  1  N  N  N  64.183  28.364   2.003  10.411   1.300  -2.065  H36  YED  82  
YED  H37  H37  H  0  1  N  N  N  65.878  28.946   2.121   9.950   1.645  -0.381  H37  YED  83  
YED  H38  H38  H  0  1  N  N  N  64.566  30.087   1.672   9.994  -0.036  -0.965  H38  YED  84  
YED  H39  H39  H  0  1  N  N  N  66.738  28.187  -1.924   7.460   2.463   0.453  H39  YED  85  
YED  H40  H40  H  0  1  N  N  N  73.768  33.114   1.344  -0.795   1.502   0.104  H40  YED  86  
YED  H41  H41  H  0  1  N  N  N  73.414  35.989   0.636  -3.491   1.221   0.926  H41  YED  87  
YED  H42  H42  H  0  1  N  N  N  72.409  35.240   2.755  -2.359   1.695  -1.872  H42  YED  88  
YED  H43  H43  H  0  1  N  N  N  73.962  34.497   3.269  -4.082   1.851  -1.453  H43  YED  89  
YED  H44  H44  H  0  1  N  N  N  73.697  38.148   1.800  -4.801   3.995  -0.085  H44  YED  90  
YED  H45  H45  H  0  1  N  N  N  74.533  41.930   2.748  -5.650   6.125  -0.135  H45  YED  91  
YED  H46  H46  H  0  1  N  N  N  75.005  40.454   1.840  -5.454   5.498   1.519  H46  YED  92  
YED  H47  H47  H  0  1  N  N  N  73.281  40.741   2.254  -5.681   7.243   1.250  H47  YED  93  
YED  H48  H48  H  0  1  N  N  N  74.281  34.724   5.635   0.004   2.633  -1.150  H48  YED  94  
YED  H49  H49  H  0  1  N  N  N  74.899  35.535   7.907   1.835   4.206  -0.762  H49  YED  95  
YED  H50  H50  H  0  1  N  N  N  75.224  37.960   8.361   1.382   6.449   0.135  H50  YED  96  
YED  H51  H51  H  0  1  N  N  N  74.978  39.650   6.538  -0.914   7.147   0.649  H51  YED  97  
#   #
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
YED  O1   C25  SING  N  N    1  
YED  C31  C32  SING  N  N    2  
YED  C31  C30  SING  N  N    3  
YED  C32  N2   SING  N  N    4  
YED  C30  C29  SING  N  N    5  
YED  O4   C18  DOUB  N  N    6  
YED  O3   C28  DOUB  N  N    7  
YED  C19  C28  SING  N  N    8  
YED  C19  N3   SING  N  N    9  
YED  C19  C20  SING  N  N   10  
YED  O2   C25  SING  N  N   11  
YED  C21  C20  SING  N  N   12  
YED  C21  C22  SING  N  N   13  
YED  C18  N3   SING  N  N   14  
YED  C18  C17  SING  N  N   15  
YED  C25  C24  SING  N  N   16  
YED  C25  C26  SING  N  N   17  
YED  C23  C22  SING  N  N   18  
YED  C23  C24  SING  N  N   19  
YED  C28  N4   SING  N  N   20  
YED  N2   C17  SING  N  N   21  
YED  N2   C16  SING  N  N   22  
YED  C29  C17  SING  N  N   23  
YED  O5   C16  DOUB  N  N   24  
YED  C26  C27  SING  N  N   25  
YED  C16  C11  SING  N  N   26  
YED  O6   C10  DOUB  N  N   27  
YED  N4   C9   SING  N  N   28  
YED  C10  C9   SING  N  N   29  
YED  C10  N1   SING  N  N   30  
YED  C9   C8   SING  N  N   31  
YED  N1   C11  SING  N  N   32  
YED  C11  C12  SING  N  N   33  
YED  C    O    SING  N  N   34  
YED  C8   C7   SING  N  N   35  
YED  C33  C7   DOUB  Y  N   36  
YED  C33  N    SING  Y  N   37  
YED  C12  C13  SING  N  N   38  
YED  C12  C14  SING  N  N   39  
YED  C7   C6   SING  Y  N   40  
YED  O    N    SING  N  N   41  
YED  N    C1   SING  Y  N   42  
YED  C14  C15  SING  N  N   43  
YED  C6   C1   DOUB  Y  N   44  
YED  C6   C5   SING  Y  N   45  
YED  C1   C2   SING  Y  N   46  
YED  C5   C4   DOUB  Y  N   47  
YED  C2   C3   DOUB  Y  N   48  
YED  C4   C3   SING  Y  N   49  
YED  N1   H1   SING  N  N   50  
YED  C11  H2   SING  N  N   51  
YED  C12  H3   SING  N  N   52  
YED  C14  H4   SING  N  N   53  
YED  C14  H5   SING  N  N   54  
YED  C15  H6   SING  N  N   55  
YED  C15  H7   SING  N  N   56  
YED  C15  H8   SING  N  N   57  
YED  C13  H9   SING  N  N   58  
YED  C13  H10  SING  N  N   59  
YED  C13  H11  SING  N  N   60  
YED  C32  H12  SING  N  N   61  
YED  C32  H13  SING  N  N   62  
YED  C31  H14  SING  N  N   63  
YED  C31  H15  SING  N  N   64  
YED  C30  H16  SING  N  N   65  
YED  C30  H17  SING  N  N   66  
YED  C29  H18  SING  N  N   67  
YED  C29  H19  SING  N  N   68  
YED  C17  H20  SING  N  N   69  
YED  N3   H21  SING  N  N   70  
YED  C19  H22  SING  N  N   71  
YED  C20  H23  SING  N  N   72  
YED  C20  H24  SING  N  N   73  
YED  C21  H25  SING  N  N   74  
YED  C21  H26  SING  N  N   75  
YED  C22  H27  SING  N  N   76  
YED  C22  H28  SING  N  N   77  
YED  C23  H29  SING  N  N   78  
YED  C23  H30  SING  N  N   79  
YED  C24  H31  SING  N  N   80  
YED  C24  H32  SING  N  N   81  
YED  O2   H33  SING  N  N   82  
YED  C26  H34  SING  N  N   83  
YED  C26  H35  SING  N  N   84  
YED  C27  H36  SING  N  N   85  
YED  C27  H37  SING  N  N   86  
YED  C27  H38  SING  N  N   87  
YED  O1   H39  SING  N  N   88  
YED  N4   H40  SING  N  N   89  
YED  C9   H41  SING  N  N   90  
YED  C8   H42  SING  N  N   91  
YED  C8   H43  SING  N  N   92  
YED  C33  H44  SING  N  N   93  
YED  C    H45  SING  N  N   94  
YED  C    H46  SING  N  N   95  
YED  C    H47  SING  N  N   96  
YED  C5   H48  SING  N  N   97  
YED  C4   H49  SING  N  N   98  
YED  C3   H50  SING  N  N   99  
YED  C2   H51  SING  N  N  100  
#   #
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
YED  SMILES            ACDLabs               12.01  "O=C1C(NC(C(NC(C2N(C(C(N1)C(C)CC)=O)CCCC2)=O)CCCCCC(CC)(O)O)=O)Cc3c4c(n(c3)OC)cccc4"  
YED  InChI             InChI                 1.03   "InChI=1S/C34H51N5O7/c1-5-22(3)29-33(43)38-19-13-11-17-28(38)32(42)35-25(15-8-7-12-18-34(44,45)6-2)30(40)36-26(31(41)37-29)20-23-21-39(46-4)27-16-10-9-14-24(23)27/h9-10,14,16,21-22,25-26,28-29,44-45H,5-8,11-13,15,17-20H2,1-4H3,(H,35,42)(H,36,40)(H,37,41)/t22-,25-,26-,28+,29-/m0/s1"  
YED  InChIKey          InChI                 1.03   YTTBRMMMZWYPGH-WLUNDFKZSA-N  
YED  SMILES_CANONICAL  CACTVS                3.385  "CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2cn(OC)c3ccccc23)NC(=O)[C@H](CCCCCC(O)(O)CC)NC(=O)[C@H]4CCCCN4C1=O"  
YED  SMILES            CACTVS                3.385  "CC[CH](C)[CH]1NC(=O)[CH](Cc2cn(OC)c3ccccc23)NC(=O)[CH](CCCCCC(O)(O)CC)NC(=O)[CH]4CCCCN4C1=O"  
YED  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CC[C@H](C)[C@H]1C(=O)N2CCCC[C@@H]2C(=O)N[C@H](C(=O)N[C@H](C(=O)N1)Cc3cn(c4c3cccc4)OC)CCCCCC(CC)(O)O"  
YED  SMILES            "OpenEye OEToolkits"  2.0.7  "CCC(C)C1C(=O)N2CCCCC2C(=O)NC(C(=O)NC(C(=O)N1)Cc3cn(c4c3cccc4)OC)CCCCCC(CC)(O)O"  
#   #
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
YED  "SYSTEMATIC NAME"  ACDLabs               12.01  "(3S,6S,9S,15aR)-9-[(2S)-butan-2-yl]-3-(6,6-dihydroxyoctyl)-6-[(1-methoxy-1H-indol-3-yl)methyl]octahydro-2H-pyrido[1,2-a][1,4,7,10]tetraazacyclododecine-1,4,7,10(3H,12H)-tetrone"  
YED  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "(3~{S},6~{S},9~{S},12~{R})-9-[6,6-bis(oxidanyl)octyl]-3-[(2~{S})-butan-2-yl]-6-[(1-methoxyindol-3-yl)methyl]-1,4,7,10-tetrazabicyclo[10.4.0]hexadecane-2,5,8,11-tetrone"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
YED  "Create component"  2021-02-23  RCSB  
YED  "Initial release"   2021-05-05  RCSB  
##
