data_KY2
#

_chem_comp.id                                   KY2
_chem_comp.name                                 "1-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-(3-azanylpropyl)amino]propyl]guanidine"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C17 H30 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                       422.485
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    KY2
_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       6S7C
_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
KY2  C13  C1   C  0  1  Y  N  N  -14.487  121.453  90.943   4.176  -1.000  -0.487  C13  KY2   1  
KY2  C11  C2   C  0  1  Y  N  N  -15.118  120.475  91.782   5.519  -1.391  -0.350  C11  KY2   2  
KY2  C28  C3   C  0  1  N  N  N  -11.935  128.969  81.762  -3.106  -5.167   0.412  C28  KY2   3  
KY2  C26  C4   C  0  1  N  N  N  -13.443  127.908  83.429  -2.581  -2.822  -0.113  C26  KY2   4  
KY2  C25  C5   C  0  1  N  N  N  -13.914  128.196  84.868  -3.109  -1.427   0.228  C25  KY2   5  
KY2  C24  C6   C  0  1  N  N  N  -12.797  127.860  85.863  -2.260  -0.373  -0.485  C24  KY2   6  
KY2  C22  C7   C  0  1  N  N  N  -13.967  130.812  89.465  -6.217   2.502  -0.487  C22  KY2   7  
KY2  C15  C8   C  0  1  Y  N  N  -13.587  122.701  89.384   2.080  -0.711  -0.961  C15  KY2   8  
KY2  C17  C9   C  0  1  N  N  R  -12.752  126.560  89.320  -0.658   2.115   0.323  C17  KY2   9  
KY2  C18  C10  C  0  1  N  N  N  -12.741  126.479  87.900  -1.847   2.008  -0.634  C18  KY2  10  
KY2  C20  C11  C  0  1  N  N  N  -12.934  128.940  88.021  -4.116   1.167  -0.703  C20  KY2  11  
KY2  C21  C12  C  0  1  N  N  N  -14.197  129.472  88.751  -4.760   2.385  -0.037  C21  KY2  12  
KY2  C02  C13  C  0  1  N  N  S  -11.369  126.130  89.921   0.261   3.274  -0.110  C02  KY2  13  
KY2  C03  C14  C  0  1  N  N  R  -11.522  124.906  90.176   1.632   2.600  -0.355  C03  KY2  14  
KY2  C05  C15  C  0  1  N  N  R  -13.111  124.791  90.668   1.501   1.290   0.464  C05  KY2  15  
KY2  C07  C16  C  0  1  Y  N  N  -14.152  122.664  91.507   3.727   0.103   0.258  C07  KY2  16  
KY2  C09  C17  C  0  1  Y  N  N  -15.002  121.969  93.577   5.831   0.330   1.156  C09  KY2  17  
KY2  N06  N1   N  0  1  Y  N  N  -13.595  123.431  90.526   2.402   0.261  -0.061  N06  KY2  18  
KY2  N08  N2   N  0  1  Y  N  N  -14.431  122.898  92.824   4.581   0.732   1.059  N08  KY2  19  
KY2  N10  N3   N  0  1  Y  N  N  -15.342  120.788  93.056   6.299  -0.701   0.476  N10  KY2  20  
KY2  N12  N4   N  0  1  N  N  N  -15.494  119.162  91.270   6.018  -2.471  -1.058  N12  KY2  21  
KY2  N14  N5   N  0  1  Y  N  N  -14.128  121.498  89.626   3.121  -1.453  -1.205  N14  KY2  22  
KY2  N19  N6   N  0  1  N  N  N  -13.304  127.732  87.263  -2.767   0.967  -0.158  N19  KY2  23  
KY2  N23  N7   N  0  1  N  N  N  -15.188  131.635  89.486  -6.835   3.671   0.152  N23  KY2  24  
KY2  N27  N8   N  0  1  N  N  N  -12.642  129.029  82.928  -3.394  -3.832   0.570  N27  KY2  25  
KY2  N29  N9   N  0  1  N  N  N  -11.872  127.891  80.986  -2.110  -5.535  -0.344  N29  KY2  26  
KY2  N30  N10  N  0  1  N  N  N  -11.242  130.013  81.349  -3.869  -6.115   1.053  N30  KY2  27  
KY2  O01  O1   O  0  1  N  N  N  -11.107  126.978  91.149   0.361   4.248   0.931  O01  KY2  28  
KY2  O04  O2   O  0  1  N  N  N  -10.648  124.358  91.233   2.696   3.411   0.148  O04  KY2  29  
KY2  O16  O3   O  0  1  N  N  N  -13.768  125.603  89.909   0.122   0.909   0.270  O16  KY2  30  
KY2  H1   H1   H  0  1  N  N  N  -14.320  127.769  82.780  -2.637  -2.979  -1.190  H1   KY2  31  
KY2  H2   H2   H  0  1  N  N  N  -12.833  126.993  83.422  -1.545  -2.909   0.213  H2   KY2  32  
KY2  H3   H3   H  0  1  N  N  N  -14.175  129.261  84.960  -4.145  -1.341  -0.098  H3   KY2  33  
KY2  H4   H4   H  0  1  N  N  N  -14.798  127.581  85.092  -3.053  -1.271   1.305  H4   KY2  34  
KY2  H5   H5   H  0  1  N  N  N  -12.334  126.908  85.566  -1.224  -0.459  -0.159  H5   KY2  35  
KY2  H6   H6   H  0  1  N  N  N  -12.043  128.660  85.832  -2.316  -0.529  -1.562  H6   KY2  36  
KY2  H7   H7   H  0  1  N  N  N  -13.652  130.615  90.500  -6.254   2.618  -1.571  H7   KY2  37  
KY2  H8   H8   H  0  1  N  N  N  -13.174  131.364  88.940  -6.760   1.601  -0.200  H8   KY2  38  
KY2  H9   H9   H  0  1  N  N  N  -13.205  123.035  88.430   1.103  -0.849  -1.401  H9   KY2  39  
KY2  H10  H10  H  0  1  N  N  N  -12.979  127.584  89.651  -1.012   2.283   1.340  H10  KY2  40  
KY2  H11  H11  H  0  1  N  N  N  -13.348  125.617  87.587  -2.369   2.964  -0.673  H11  KY2  41  
KY2  H12  H12  H  0  1  N  N  N  -11.704  126.341  87.559  -1.489   1.749  -1.630  H12  KY2  42  
KY2  H13  H13  H  0  1  N  N  N  -12.157  128.691  88.759  -4.722   0.282  -0.506  H13  KY2  43  
KY2  H14  H14  H  0  1  N  N  N  -12.553  129.708  87.332  -4.053   1.332  -1.778  H14  KY2  44  
KY2  H15  H15  H  0  1  N  N  N  -14.999  129.605  88.010  -4.217   3.285  -0.324  H15  KY2  45  
KY2  H16  H16  H  0  1  N  N  N  -14.508  128.727  89.498  -4.723   2.268   1.047  H16  KY2  46  
KY2  H17  H17  H  0  1  N  N  N  -10.587  126.325  89.173  -0.109   3.732  -1.027  H17  KY2  47  
KY2  H18  H18  H  0  1  N  N  N  -11.426  124.279  89.277   1.776   2.384  -1.413  H18  KY2  48  
KY2  H19  H19  H  0  1  N  N  N  -13.144  125.089  91.726   1.704   1.474   1.518  H19  KY2  49  
KY2  H20  H20  H  0  1  N  N  N  -15.194  122.169  94.621   6.499   0.864   1.816  H20  KY2  50  
KY2  H21  H21  H  0  1  N  N  N  -15.906  118.623  92.005   5.439  -2.967  -1.657  H21  KY2  51  
KY2  H22  H22  H  0  1  N  N  N  -16.154  119.271  90.526   6.947  -2.731  -0.955  H22  KY2  52  
KY2  H24  H24  H  0  1  N  N  N  -15.001  132.497  89.957  -6.312   4.510  -0.047  H24  KY2  53  
KY2  H25  H25  H  0  1  N  N  N  -15.479  131.824  88.548  -7.799   3.770  -0.130  H25  KY2  54  
KY2  H27  H27  H  0  1  N  N  N  -12.612  129.873  83.463  -4.135  -3.559   1.133  H27  KY2  55  
KY2  H28  H28  H  0  1  N  N  N  -12.404  127.130  81.358  -1.572  -4.866  -0.796  H28  KY2  56  
KY2  H29  H29  H  0  1  N  N  N  -11.233  130.853  81.891  -4.610  -5.842   1.616  H29  KY2  57  
KY2  H30  H30  H  0  1  N  N  N  -10.726  129.964  80.494  -3.666  -7.057   0.942  H30  KY2  58  
KY2  H31  H31  H  0  1  N  N  N  -10.272  126.734  91.531   0.928   5.001   0.712  H31  KY2  59  
KY2  H32  H32  H  0  1  N  N  N  -10.836  123.435  91.353   2.761   4.279  -0.272  H32  KY2  60  
#   #
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
KY2  N29  C28  DOUB  N  N   1  
KY2  N30  C28  SING  N  N   2  
KY2  C28  N27  SING  N  N   3  
KY2  N27  C26  SING  N  N   4  
KY2  C26  C25  SING  N  N   5  
KY2  C25  C24  SING  N  N   6  
KY2  C24  N19  SING  N  N   7  
KY2  N19  C18  SING  N  N   8  
KY2  N19  C20  SING  N  N   9  
KY2  C18  C17  SING  N  N  10  
KY2  C20  C21  SING  N  N  11  
KY2  C21  C22  SING  N  N  12  
KY2  C17  O16  SING  N  N  13  
KY2  C17  C02  SING  N  N  14  
KY2  C15  N14  DOUB  Y  N  15  
KY2  C15  N06  SING  Y  N  16  
KY2  C22  N23  SING  N  N  17  
KY2  N14  C13  SING  Y  N  18  
KY2  O16  C05  SING  N  N  19  
KY2  C02  C03  SING  N  N  20  
KY2  C02  O01  SING  N  N  21  
KY2  C03  C05  SING  N  N  22  
KY2  C03  O04  SING  N  N  23  
KY2  N06  C05  SING  N  N  24  
KY2  N06  C07  SING  Y  N  25  
KY2  C13  C07  DOUB  Y  N  26  
KY2  C13  C11  SING  Y  N  27  
KY2  N12  C11  SING  N  N  28  
KY2  C07  N08  SING  Y  N  29  
KY2  C11  N10  DOUB  Y  N  30  
KY2  N08  C09  DOUB  Y  N  31  
KY2  N10  C09  SING  Y  N  32  
KY2  C26  H1   SING  N  N  33  
KY2  C26  H2   SING  N  N  34  
KY2  C25  H3   SING  N  N  35  
KY2  C25  H4   SING  N  N  36  
KY2  C24  H5   SING  N  N  37  
KY2  C24  H6   SING  N  N  38  
KY2  C22  H7   SING  N  N  39  
KY2  C22  H8   SING  N  N  40  
KY2  C15  H9   SING  N  N  41  
KY2  C17  H10  SING  N  N  42  
KY2  C18  H11  SING  N  N  43  
KY2  C18  H12  SING  N  N  44  
KY2  C20  H13  SING  N  N  45  
KY2  C20  H14  SING  N  N  46  
KY2  C21  H15  SING  N  N  47  
KY2  C21  H16  SING  N  N  48  
KY2  C02  H17  SING  N  N  49  
KY2  C03  H18  SING  N  N  50  
KY2  C05  H19  SING  N  N  51  
KY2  C09  H20  SING  N  N  52  
KY2  N12  H21  SING  N  N  53  
KY2  N12  H22  SING  N  N  54  
KY2  N23  H24  SING  N  N  55  
KY2  N23  H25  SING  N  N  56  
KY2  N27  H27  SING  N  N  57  
KY2  N29  H28  SING  N  N  58  
KY2  N30  H29  SING  N  N  59  
KY2  N30  H30  SING  N  N  60  
KY2  O01  H31  SING  N  N  61  
KY2  O04  H32  SING  N  N  62  
#   #
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
KY2  InChI             InChI                 1.03   "InChI=1S/C17H30N10O3/c18-3-1-5-26(6-2-4-22-17(20)21)7-10-12(28)13(29)16(30-10)27-9-25-11-14(19)23-8-24-15(11)27/h8-10,12-13,16,28-29H,1-7,18H2,(H2,19,23,24)(H4,20,21,22)/t10-,12-,13-,16-/m1/s1"  
KY2  InChIKey          InChI                 1.03   ALBPVVFHRWZNEG-XNIJJKJLSA-N  
KY2  SMILES_CANONICAL  CACTVS                3.385  "NCCCN(CCCNC(N)=N)C[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23"  
KY2  SMILES            CACTVS                3.385  "NCCCN(CCCNC(N)=N)C[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23"  
KY2  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "[H]/N=C(\N)/NCCCN(CCCN)C[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O"  
KY2  SMILES            "OpenEye OEToolkits"  2.0.7  "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)CN(CCCN)CCCNC(=N)N)O)O)N"  
#
_pdbx_chem_comp_identifier.comp_id          KY2
_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-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-(3-azanylpropyl)amino]propyl]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
KY2  "Create component"  2019-07-04  EBI   
KY2  "Initial release"   2020-03-04  RCSB  
##
