data_KYB
#

_chem_comp.id                                   KYB
_chem_comp.name                                 "1-[5-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-(3-azanylpropyl)amino]pentyl]guanidine"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C19 H34 N10 O3"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2019-07-04
_chem_comp.pdbx_modified_date                   2020-02-28
_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                       450.538
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    KYB
_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       6S70
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 EBI
#   #
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
KYB  C13  C1   C  0  1  Y  N  N  16.252  23.819  12.366    5.576  -1.422   0.235  C13  KYB   1  
KYB  C15  C2   C  0  1  Y  N  N  15.180  24.976  13.830    3.584  -1.209  -0.595  C15  KYB   2  
KYB  C17  C3   C  0  1  N  N  R  14.427  28.749  13.617    0.797   1.826  -0.226  C17  KYB   3  
KYB  C18  C4   C  0  1  N  N  N  14.804  29.241  15.026   -0.468   1.525  -1.032  C18  KYB   4  
KYB  C20  C5   C  0  1  N  N  N  14.115  31.554  14.624   -1.001  -0.573   0.054  C20  KYB   5  
KYB  C21  C6   C  0  1  N  N  N  15.338  32.511  14.906   -0.853  -1.296  -1.286  C21  KYB   6  
KYB  C22  C7   C  0  1  N  N  N  15.460  33.661  13.844   -0.531  -2.771  -1.036  C22  KYB   7  
KYB  C28  C8   C  0  1  N  N  N  12.766  31.027  20.473   -7.618  -0.050   0.093  C28  KYB   8  
KYB  N32  N1   N  0  1  N  N  N  12.259  29.734  23.132  -10.312  -0.326  -0.454  N32  KYB   9  
KYB  C02  C9   C  0  1  N  N  S  12.908  28.096  13.504    1.771   2.691  -1.057  C02  KYB  10  
KYB  C03  C10  C  0  1  N  N  R  13.028  26.813  13.192    3.169   2.152  -0.678  C03  KYB  11  
KYB  C05  C11  C  0  1  N  N  R  14.437  26.727  12.553    2.874   1.026   0.338  C05  KYB  12  
KYB  C07  C12  C  0  1  Y  N  N  15.727  24.893  11.755    5.064  -0.195   0.688  C07  KYB  13  
KYB  C09  C13  C  0  1  Y  N  N  16.654  24.194   9.765    7.020   0.179   1.834  C09  KYB  14  
KYB  C11  C14  C  0  1  Y  N  N  17.004  22.894  11.582    6.868  -1.794   0.646  C11  KYB  15  
KYB  C24  C15  C  0  1  N  N  N  14.376  30.754  16.913   -2.779   0.852  -0.767  C24  KYB  16  
KYB  C25  C16  C  0  1  N  N  N  14.096  29.747  18.037   -3.808   0.466   0.298  C25  KYB  17  
KYB  C26  C17  C  0  1  N  N  N  14.923  30.142  19.379   -5.198   0.401  -0.337  C26  KYB  18  
KYB  C27  C18  C  0  1  N  N  N  14.087  30.196  20.679   -6.227   0.015   0.728  C27  KYB  19  
KYB  C30  C19  C  0  1  N  N  N  12.061  31.056  22.830   -9.930  -0.540   0.774  C30  KYB  20  
KYB  N06  N2   N  0  1  Y  N  N  15.049  25.594  12.705    3.807  -0.088   0.149  N06  KYB  21  
KYB  N08  N3   N  0  1  Y  N  N  15.936  25.070  10.455    5.813   0.566   1.478  N08  KYB  22  
KYB  N10  N4   N  0  1  Y  N  N  17.178  23.124  10.339    7.543  -0.967   1.437  N10  KYB  23  
KYB  N12  N5   N  0  1  N  N  N  17.576  21.713  12.184    7.423  -2.994   0.236  N12  KYB  24  
KYB  N14  N6   N  0  1  Y  N  N  15.919  23.887  13.629    4.624  -1.990  -0.543  N14  KYB  25  
KYB  N19  N7   N  0  1  N  N  N  14.011  30.360  15.527   -1.431   0.812  -0.183  N19  KYB  26  
KYB  N23  N8   N  0  1  N  N  N  16.930  33.837  13.487   -0.389  -3.466  -2.322  N23  KYB  27  
KYB  N29  N9   N  0  1  N  N  N  12.278  31.660  21.675   -8.603  -0.419   1.113  N29  KYB  28  
KYB  N31  N10  N  0  1  N  N  N  11.611  31.868  23.807  -10.855  -0.887   1.731  N31  KYB  29  
KYB  O01  O1   O  0  1  N  N  N  12.265  29.013  12.532    1.648   4.068  -0.699  O01  KYB  30  
KYB  O04  O2   O  0  1  N  N  N  12.061  26.403  12.213    3.955   3.181  -0.074  O04  KYB  31  
KYB  O16  O3   O  0  1  N  N  N  15.243  27.810  13.339    1.522   0.607   0.045  O16  KYB  32  
KYB  H1   H1   H  0  1  N  N  N  14.761  25.289  14.775    2.678  -1.418  -1.145  H1   KYB  33  
KYB  H2   H2   H  0  1  N  N  N  14.481  29.594  12.914    0.542   2.331   0.705  H2   KYB  34  
KYB  H3   H3   H  0  1  N  N  N  14.684  28.399  15.724   -0.910   2.460  -1.377  H3   KYB  35  
KYB  H4   H4   H  0  1  N  N  N  15.859  29.553  15.007   -0.213   0.905  -1.891  H4   KYB  36  
KYB  H5   H5   H  0  1  N  N  N  13.192  32.142  14.731   -1.745  -1.085   0.664  H5   KYB  37  
KYB  H6   H6   H  0  1  N  N  N  14.200  31.191  13.589   -0.043  -0.571   0.574  H6   KYB  38  
KYB  H7   H7   H  0  1  N  N  N  16.263  31.916  14.889   -1.785  -1.218  -1.846  H7   KYB  39  
KYB  H8   H8   H  0  1  N  N  N  15.211  32.962  15.901   -0.045  -0.840  -1.858  H8   KYB  40  
KYB  H9   H9   H  0  1  N  N  N  15.066  34.598  14.265    0.401  -2.850  -0.476  H9   KYB  41  
KYB  H10  H10  H  0  1  N  N  N  14.889  33.395  12.942   -1.339  -3.227  -0.464  H10  KYB  42  
KYB  H11  H11  H  0  1  N  N  N  12.962  31.809  19.725   -7.873   0.925  -0.323  H11  KYB  43  
KYB  H12  H12  H  0  1  N  N  N  11.986  30.349  20.098   -7.620  -0.796  -0.701  H12  KYB  44  
KYB  H13  H13  H  0  1  N  N  N  12.034  29.530  24.085  -11.248  -0.412  -0.693  H13  KYB  45  
KYB  H14  H14  H  0  1  N  N  N  12.431  28.225  14.487    1.587   2.556  -2.123  H14  KYB  46  
KYB  H15  H15  H  0  1  N  N  N  12.991  26.158  14.075    3.675   1.752  -1.556  H15  KYB  47  
KYB  H16  H16  H  0  1  N  N  N  14.369  27.035  11.499    2.941   1.407   1.357  H16  KYB  48  
KYB  H17  H17  H  0  1  N  N  N  16.815  24.358   8.710    7.604   0.821   2.477  H17  KYB  49  
KYB  H18  H18  H  0  1  N  N  N  15.456  30.964  16.921   -2.835   0.149  -1.598  H18  KYB  50  
KYB  H19  H19  H  0  1  N  N  N  13.821  31.674  17.150   -2.989   1.859  -1.127  H19  KYB  51  
KYB  H20  H20  H  0  1  N  N  N  13.019  29.747  18.263   -3.552  -0.508   0.714  H20  KYB  52  
KYB  H21  H21  H  0  1  N  N  N  14.401  28.743  17.707   -3.806   1.212   1.092  H21  KYB  53  
KYB  H22  H22  H  0  1  N  N  N  15.720  29.397  19.518   -5.454   1.375  -0.753  H22  KYB  54  
KYB  H23  H23  H  0  1  N  N  N  15.372  31.134  19.222   -5.200  -0.345  -1.131  H23  KYB  55  
KYB  H24  H24  H  0  1  N  N  N  13.823  29.171  20.978   -6.225   0.762   1.522  H24  KYB  56  
KYB  H25  H25  H  0  1  N  N  N  14.687  30.667  21.472   -5.972  -0.959   1.144  H25  KYB  57  
KYB  H26  H26  H  0  1  N  N  N  18.072  21.191  11.490    6.920  -3.589  -0.341  H26  KYB  58  
KYB  H27  H27  H  0  1  N  N  N  18.206  21.982  12.912    8.315  -3.239   0.527  H27  KYB  59  
KYB  H29  H29  H  0  1  N  N  N  17.024  34.567  12.810   -0.176  -4.443  -2.184  H29  KYB  60  
KYB  H30  H30  H  0  1  N  N  N  17.446  34.076  14.309   -1.217  -3.353  -2.888  H30  KYB  61  
KYB  H32  H32  H  0  1  N  N  N  12.088  32.641  21.630   -8.319  -0.578   2.026  H32  KYB  62  
KYB  H33  H33  H  0  1  N  N  N  11.432  31.501  24.720  -11.791  -0.972   1.492  H33  KYB  63  
KYB  H34  H34  H  0  1  N  N  N  11.456  32.838  23.619  -10.571  -1.046   2.645  H34  KYB  64  
KYB  H35  H35  H  0  1  N  N  N  12.249  29.893  12.889    2.237   4.657  -1.190  H35  KYB  65  
KYB  H36  H36  H  0  1  N  N  N  11.190  26.450  12.589    4.119   3.940  -0.650  H36  KYB  66  
#   #
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
KYB  C09  N10  DOUB  Y  N   1  
KYB  C09  N08  SING  Y  N   2  
KYB  N10  C11  SING  Y  N   3  
KYB  N08  C07  DOUB  Y  N   4  
KYB  C11  N12  SING  N  N   5  
KYB  C11  C13  DOUB  Y  N   6  
KYB  C07  C13  SING  Y  N   7  
KYB  C07  N06  SING  Y  N   8  
KYB  O04  C03  SING  N  N   9  
KYB  C13  N14  SING  Y  N  10  
KYB  O01  C02  SING  N  N  11  
KYB  C05  N06  SING  N  N  12  
KYB  C05  C03  SING  N  N  13  
KYB  C05  O16  SING  N  N  14  
KYB  N06  C15  SING  Y  N  15  
KYB  C03  C02  SING  N  N  16  
KYB  O16  C17  SING  N  N  17  
KYB  N23  C22  SING  N  N  18  
KYB  C02  C17  SING  N  N  19  
KYB  C17  C18  SING  N  N  20  
KYB  N14  C15  DOUB  Y  N  21  
KYB  C22  C21  SING  N  N  22  
KYB  C20  C21  SING  N  N  23  
KYB  C20  N19  SING  N  N  24  
KYB  C18  N19  SING  N  N  25  
KYB  N19  C24  SING  N  N  26  
KYB  C24  C25  SING  N  N  27  
KYB  C25  C26  SING  N  N  28  
KYB  C26  C27  SING  N  N  29  
KYB  C28  C27  SING  N  N  30  
KYB  C28  N29  SING  N  N  31  
KYB  N29  C30  SING  N  N  32  
KYB  C30  N32  DOUB  N  N  33  
KYB  C30  N31  SING  N  N  34  
KYB  C15  H1   SING  N  N  35  
KYB  C17  H2   SING  N  N  36  
KYB  C18  H3   SING  N  N  37  
KYB  C18  H4   SING  N  N  38  
KYB  C20  H5   SING  N  N  39  
KYB  C20  H6   SING  N  N  40  
KYB  C21  H7   SING  N  N  41  
KYB  C21  H8   SING  N  N  42  
KYB  C22  H9   SING  N  N  43  
KYB  C22  H10  SING  N  N  44  
KYB  C28  H11  SING  N  N  45  
KYB  C28  H12  SING  N  N  46  
KYB  N32  H13  SING  N  N  47  
KYB  C02  H14  SING  N  N  48  
KYB  C03  H15  SING  N  N  49  
KYB  C05  H16  SING  N  N  50  
KYB  C09  H17  SING  N  N  51  
KYB  C24  H18  SING  N  N  52  
KYB  C24  H19  SING  N  N  53  
KYB  C25  H20  SING  N  N  54  
KYB  C25  H21  SING  N  N  55  
KYB  C26  H22  SING  N  N  56  
KYB  C26  H23  SING  N  N  57  
KYB  C27  H24  SING  N  N  58  
KYB  C27  H25  SING  N  N  59  
KYB  N12  H26  SING  N  N  60  
KYB  N12  H27  SING  N  N  61  
KYB  N23  H29  SING  N  N  62  
KYB  N23  H30  SING  N  N  63  
KYB  N29  H32  SING  N  N  64  
KYB  N31  H33  SING  N  N  65  
KYB  N31  H34  SING  N  N  66  
KYB  O01  H35  SING  N  N  67  
KYB  O04  H36  SING  N  N  68  
#   #
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
KYB  InChI             InChI                 1.03   "InChI=1S/C19H34N10O3/c20-5-4-8-28(7-3-1-2-6-24-19(22)23)9-12-14(30)15(31)18(32-12)29-11-27-13-16(21)25-10-26-17(13)29/h10-12,14-15,18,30-31H,1-9,20H2,(H2,21,25,26)(H4,22,23,24)/t12-,14-,15-,18-/m1/s1"  
KYB  InChIKey          InChI                 1.03   DDMCCWMSVOANNB-SCFUHWHPSA-N  
KYB  SMILES_CANONICAL  CACTVS                3.385  "NCCCN(CCCCCNC(N)=N)C[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23"  
KYB  SMILES            CACTVS                3.385  "NCCCN(CCCCCNC(N)=N)C[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23"  
KYB  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "[H]/N=C(/N)\NCCCCCN(CCCN)C[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O"  
KYB  SMILES            "OpenEye OEToolkits"  2.0.7  "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)CN(CCCCCNC(=N)N)CCCN)O)O)N"  
#
_pdbx_chem_comp_identifier.comp_id          KYB
_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-[5-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-(3-azanylpropyl)amino]pentyl]guanidine"
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
KYB  "Create component"  2019-07-04  EBI   
KYB  "Initial release"   2020-03-04  RCSB  
##
