data_J1F
#

_chem_comp.id                                   J1F
_chem_comp.name                                 "((2-(2-amino-7,7-dimethyl-4-oxo-3,4,7,8-tetrahydropteridine-6-carboxamido)-N-(2-((((2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl)methyl)amino)-2-oxoethyl)acetamido)methyl)phosphonic acid"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C24 H32 N13 O10 P"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "5'-{[N-(2-amino-7,7-dimethyl-4-oxo-3,4,7,8-tetrahydropteridine-6-carbonyl)glycyl-N-(phosphonomethyl)glycyl]amino}-5'-deoxyadenosine"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2017-08-17
_chem_comp.pdbx_modified_date                   2021-03-13
_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                       693.566
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    J1F
_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       6AN4
_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
J1F  C01  C1   C  0  1  N  N  N   3.664  -2.384   5.105   -0.557   2.841   0.515  C01  J1F   1  
J1F  C1   C2   C  0  1  N  N  R   3.404   2.748   4.120    4.326  -1.875   0.153  C1   J1F   2  
J1F  C10  C3   C  0  1  N  N  N   4.757   2.186   3.631    3.053  -1.319   0.795  C10  J1F   3  
J1F  C11  C4   C  0  1  N  N  N   4.209  -0.031   2.657    1.173   0.095   0.164  C11  J1F   4  
J1F  C12  C5   C  0  1  N  N  N   4.241  -1.539   2.834    0.429   0.937  -0.841  C12  J1F   5  
J1F  C13  C6   C  0  1  N  N  N   6.066  -2.041   4.488   -1.934   0.981  -0.248  C13  J1F   6  
J1F  C14  C7   C  0  1  N  N  N   7.130  -1.565   3.447   -3.118   1.631   0.420  C14  J1F   7  
J1F  C15  C8   C  0  1  N  N  N   7.959  -3.609   2.386   -5.494   1.188   0.730  C15  J1F   8  
J1F  C16  C9   C  0  1  N  N  N  13.852  -5.474   1.055   -9.820  -3.095  -0.788  C16  J1F   9  
J1F  C17  C10  C  0  1  N  N  N  12.615  -3.446   1.710   -7.473  -2.923  -0.720  C17  J1F  10  
J1F  C18  C11  C  0  1  N  N  N   9.206  -4.406   2.059   -6.683   0.359   0.529  C18  J1F  11  
J1F  C19  C12  C  0  1  N  N  N   9.055  -5.806   1.470   -8.023   0.861   1.006  C19  J1F  12  
J1F  C2   C13  C  0  1  N  N  S   3.428   4.286   4.129    5.040  -2.842   1.124  C2   J1F  13  
J1F  C20  C14  C  0  1  N  N  N   8.391  -5.659   0.081   -8.070   2.386   0.886  C20  J1F  14  
J1F  C21  C15  C  0  1  N  N  N   8.296  -6.763   2.389   -8.231   0.456   2.466  C21  J1F  15  
J1F  C22  C16  C  0  1  N  N  N  11.549  -5.638   1.255   -8.931  -1.054  -0.191  C22  J1F  16  
J1F  C23  C17  C  0  1  N  N  N  11.458  -4.294   1.615   -7.624  -1.571  -0.319  C23  J1F  17  
J1F  C3   C18  C  0  1  N  N  R   2.519   4.655   5.319    6.542  -2.570   0.888  C3   J1F  18  
J1F  C4   C19  C  0  1  N  N  R   2.476   3.328   6.139    6.558  -1.471  -0.198  C4   J1F  19  
J1F  C5   C20  C  0  1  Y  N  N   4.456   3.892   7.729    7.543   0.662   0.723  C5   J1F  20  
J1F  C6   C21  C  0  1  Y  N  N   3.695   2.936   9.527    9.620   0.484   0.127  C6   J1F  21  
J1F  C7   C22  C  0  1  Y  N  N   3.428   2.397  10.783   10.994   0.605  -0.141  C7   J1F  22  
J1F  C8   C23  C  0  1  Y  N  N   1.400   1.600   9.949   10.924  -1.423  -1.240  C8   J1F  23  
J1F  C9   C24  C  0  1  Y  N  N   2.711   2.730   8.535    8.952  -0.660  -0.340  C9   J1F  24  
J1F  N02  N1   N  0  1  N  N  N   4.762   0.756   3.670    2.331  -0.501  -0.182  N02  J1F  25  
J1F  N1   N2   N  0  1  Y  N  N   3.192   3.354   7.412    7.645  -0.521   0.054  N1   J1F  26  
J1F  N10  N3   N  0  1  N  N  N  13.835  -4.134   1.406   -8.589  -3.651  -0.943  N10  J1F  27  
J1F  N11  N4   N  0  1  N  N  N  10.258  -3.666   1.913   -6.563  -0.798  -0.059  N11  J1F  28  
J1F  N12  N5   N  0  1  N  N  N  10.411  -6.386   1.187   -9.081   0.266   0.173  N12  J1F  29  
J1F  N2   N6   N  0  1  Y  N  N   4.779   3.667   9.011    8.702   1.252   0.762  N2   J1F  30  
J1F  N3   N7   N  0  1  N  N  N   4.330   2.558  11.788   11.706   1.710   0.294  N3   J1F  31  
J1F  N4   N8   N  0  1  Y  N  N   2.259   1.718  11.009   11.595  -0.365  -0.822  N4   J1F  32  
J1F  N5   N9   N  0  1  Y  N  N   1.532   2.059   8.695    9.637  -1.579  -1.013  N5   J1F  33  
J1F  N6   N10  N  0  1  N  N  N   4.716  -1.992   4.154   -0.722   1.569  -0.193  N6   J1F  34  
J1F  N7   N11  N  0  1  N  N  N   8.204  -2.464   3.095   -4.308   0.802   0.218  N7   J1F  35  
J1F  N8   N12  N  0  1  N  N  N  12.765  -6.269   0.957   -9.979  -1.835  -0.425  N8   J1F  36  
J1F  N9   N13  N  0  1  N  N  N  15.087  -6.025   0.779  -10.927  -3.862  -1.019  N9   J1F  37  
J1F  O01  O1   O  0  1  N  N  N   3.706   0.525   1.661    0.728  -0.046   1.283  O01  J1F  38  
J1F  OP2  O2   O  0  1  N  N  N   4.281  -5.027   5.156   -2.128   4.253  -1.331  OP2  J1F  39  
J1F  OP3  O3   O  0  1  N  N  N   1.921  -4.211   5.838   -0.375   5.607   0.085  OP3  J1F  40  
J1F  OP1  O4   O  0  1  N  N  N   2.613  -4.227   3.375    0.352   4.023  -1.740  OP1  J1F  41  
J1F  O1   O5   O  0  1  N  N  N   3.171   2.333   5.442    5.278  -0.814  -0.077  O1   J1F  42  
J1F  O2   O6   O  0  1  N  N  N   2.909   4.831   2.960    4.720  -4.198   0.806  O2   J1F  43  
J1F  O3   O7   O  0  1  N  N  N   1.238   4.984   4.886    7.196  -3.750   0.416  O3   J1F  44  
J1F  O4   O8   O  0  1  N  N  N   6.836  -3.965   2.046   -5.575   2.226   1.361  O4   J1F  45  
J1F  O5   O9   O  0  1  N  N  N  12.728  -2.275   2.011   -6.366  -3.414  -0.860  O5   J1F  46  
J1F  O6   O10  O  0  1  N  N  N   6.505  -2.399   5.576   -2.070  -0.072  -0.834  O6   J1F  47  
J1F  P01  P1   P  0  1  N  N  N   3.057  -4.210   4.831   -0.658   4.217  -0.676  P01  J1F  48  
J1F  H23  H1   H  0  1  N  N  N   4.061  -2.294   6.127   -1.345   2.947   1.261  H23  J1F  49  
J1F  H05  H2   H  0  1  N  N  N   2.807  -1.705   4.983    0.415   2.858   1.009  H05  J1F  50  
J1F  H06  H3   H  0  1  N  N  N   2.605   2.402   3.448    4.089  -2.383  -0.782  H06  J1F  51  
J1F  H26  H4   H  0  1  N  N  N   5.560   2.566   4.279    2.419  -2.145   1.118  H26  J1F  52  
J1F  H17  H5   H  0  1  N  N  N   4.932   2.518   2.597    3.319  -0.707   1.657  H17  J1F  53  
J1F  H27  H6   H  0  1  N  N  N   3.221  -1.924   2.686    1.094   1.707  -1.233  H27  J1F  54  
J1F  H18  H7   H  0  1  N  N  N   4.907  -1.960   2.067    0.083   0.305  -1.660  H18  J1F  55  
J1F  H20  H8   H  0  1  N  N  N   7.591  -0.651   3.850   -2.922   1.733   1.487  H20  J1F  56  
J1F  H28  H9   H  0  1  N  N  N   6.591  -1.325   2.519   -3.284   2.617  -0.015  H28  J1F  57  
J1F  H07  H11  H  0  1  N  N  N   4.452   4.638   4.324    4.769  -2.617   2.156  H07  J1F  58  
J1F  H29  H12  H  0  1  N  N  N   7.382  -5.236   0.199   -7.737   2.683  -0.108  H29  J1F  59  
J1F  H31  H13  H  0  1  N  N  N   8.998  -4.990  -0.546   -9.092   2.731   1.045  H31  J1F  60  
J1F  H21  H14  H  0  1  N  N  N   8.320  -6.647  -0.398   -7.416   2.830   1.636  H21  J1F  61  
J1F  H22  H15  H  0  1  N  N  N   8.812  -6.828   3.358   -7.442   0.889   3.080  H22  J1F  62  
J1F  H30  H16  H  0  1  N  N  N   7.273  -6.389   2.543   -9.200   0.819   2.809  H30  J1F  63  
J1F  H04  H17  H  0  1  N  N  N   8.257  -7.761   1.927   -8.201  -0.631   2.549  H04  J1F  64  
J1F  H11  H18  H  0  1  N  N  N   2.981   5.454   5.918    7.014  -2.211   1.802  H11  J1F  65  
J1F  H14  H19  H  0  1  N  N  N   1.426   3.042   6.299    6.666  -1.917  -1.187  H14  J1F  66  
J1F  H02  H20  H  0  1  N  N  N   5.085   4.419   7.027    6.633   1.054   1.154  H02  J1F  67  
J1F  H03  H21  H  0  1  N  N  N   0.486   1.061  10.151   11.451  -2.189  -1.790  H03  J1F  68  
J1F  H08  H22  H  0  1  N  N  N   5.179   0.300   4.456    2.686  -0.388  -1.077  H08  J1F  69  
J1F  H01  H23  H  0  1  N  N  N  14.699  -3.632   1.448   -8.511  -4.579  -1.217  H01  J1F  70  
J1F  H19  H25  H  0  1  N  N  N  10.371  -6.749   0.256   -9.852   0.783  -0.108  H19  J1F  71  
J1F  H12  H26  H  0  1  N  N  N   3.985   2.122  12.619   11.256   2.412   0.790  H12  J1F  72  
J1F  H24  H27  H  0  1  N  N  N   5.199   2.137  11.527   12.654   1.782   0.103  H24  J1F  73  
J1F  H15  H28  H  0  1  N  N  N   9.140  -2.247   3.373   -4.244  -0.026  -0.284  H15  J1F  74  
J1F  H16  H29  H  0  1  N  N  N  15.158  -6.987   0.515  -10.828  -4.788  -1.290  H16  J1F  75  
J1F  H25  H30  H  0  1  N  N  N  15.911  -5.462   0.843  -11.813  -3.480  -0.913  H25  J1F  76  
J1F  HP2  H31  H  0  1  N  N  N   4.602  -5.446   4.366   -2.841   4.378  -0.689  HP2  J1F  77  
J1F  HP3  H32  H  0  1  N  N  N   1.090  -4.222   5.378   -0.413   6.385  -0.488  HP3  J1F  78  
J1F  H10  H33  H  0  1  N  N  N   2.944   5.779   3.010    5.142  -4.848   1.385  H10  J1F  79  
J1F  H13  H34  H  0  1  N  N  N   0.698   5.207   5.635    7.163  -4.492   1.035  H13  J1F  80  
#   #
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
J1F  C20  C19  SING  N  N   1  
J1F  N9   C16  SING  N  N   2  
J1F  N8   C16  DOUB  N  N   3  
J1F  N8   C22  SING  N  N   4  
J1F  C16  N10  SING  N  N   5  
J1F  N12  C22  SING  N  N   6  
J1F  N12  C19  SING  N  N   7  
J1F  C22  C23  DOUB  N  N   8  
J1F  N10  C17  SING  N  N   9  
J1F  C19  C18  SING  N  N  10  
J1F  C19  C21  SING  N  N  11  
J1F  C23  C17  SING  N  N  12  
J1F  C23  N11  SING  N  N  13  
J1F  O01  C11  DOUB  N  N  14  
J1F  C17  O5   DOUB  N  N  15  
J1F  N11  C18  DOUB  N  N  16  
J1F  O4   C15  DOUB  N  N  17  
J1F  C18  C15  SING  N  N  18  
J1F  C15  N7   SING  N  N  19  
J1F  C11  C12  SING  N  N  20  
J1F  C11  N02  SING  N  N  21  
J1F  C12  N6   SING  N  N  22  
J1F  O2   C2   SING  N  N  23  
J1F  N7   C14  SING  N  N  24  
J1F  OP1  P01  DOUB  N  N  25  
J1F  C14  C13  SING  N  N  26  
J1F  C10  N02  SING  N  N  27  
J1F  C10  C1   SING  N  N  28  
J1F  C1   C2   SING  N  N  29  
J1F  C1   O1   SING  N  N  30  
J1F  C2   C3   SING  N  N  31  
J1F  N6   C13  SING  N  N  32  
J1F  N6   C01  SING  N  N  33  
J1F  C13  O6   DOUB  N  N  34  
J1F  P01  C01  SING  N  N  35  
J1F  P01  OP2  SING  N  N  36  
J1F  P01  OP3  SING  N  N  37  
J1F  O3   C3   SING  N  N  38  
J1F  C3   C4   SING  N  N  39  
J1F  O1   C4   SING  N  N  40  
J1F  C4   N1   SING  N  N  41  
J1F  N1   C5   SING  Y  N  42  
J1F  N1   C9   SING  Y  N  43  
J1F  C5   N2   DOUB  Y  N  44  
J1F  C9   N5   DOUB  Y  N  45  
J1F  C9   C6   SING  Y  N  46  
J1F  N5   C8   SING  Y  N  47  
J1F  N2   C6   SING  Y  N  48  
J1F  C6   C7   DOUB  Y  N  49  
J1F  C8   N4   DOUB  Y  N  50  
J1F  C7   N4   SING  Y  N  51  
J1F  C7   N3   SING  N  N  52  
J1F  C01  H23  SING  N  N  53  
J1F  C01  H05  SING  N  N  54  
J1F  C1   H06  SING  N  N  55  
J1F  C10  H26  SING  N  N  56  
J1F  C10  H17  SING  N  N  57  
J1F  C12  H27  SING  N  N  58  
J1F  C12  H18  SING  N  N  59  
J1F  C14  H20  SING  N  N  60  
J1F  C14  H28  SING  N  N  61  
J1F  C2   H07  SING  N  N  62  
J1F  C20  H29  SING  N  N  63  
J1F  C20  H31  SING  N  N  64  
J1F  C20  H21  SING  N  N  65  
J1F  C21  H22  SING  N  N  66  
J1F  C21  H30  SING  N  N  67  
J1F  C21  H04  SING  N  N  68  
J1F  C3   H11  SING  N  N  69  
J1F  C4   H14  SING  N  N  70  
J1F  C5   H02  SING  N  N  71  
J1F  C8   H03  SING  N  N  72  
J1F  N02  H08  SING  N  N  73  
J1F  N10  H01  SING  N  N  74  
J1F  N12  H19  SING  N  N  75  
J1F  N3   H12  SING  N  N  76  
J1F  N3   H24  SING  N  N  77  
J1F  N7   H15  SING  N  N  78  
J1F  N9   H16  SING  N  N  79  
J1F  N9   H25  SING  N  N  80  
J1F  OP2  HP2  SING  N  N  81  
J1F  OP3  HP3  SING  N  N  82  
J1F  O2   H10  SING  N  N  83  
J1F  O3   H13  SING  N  N  84  
#   #
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
J1F  SMILES            ACDLabs               12.01  "C(N(CC(NCC3C(C(C(n2cnc1c(ncnc12)N)O3)O)O)=O)C(=O)CNC(C=5C(C)(C)NC4=C(C(=O)NC(=N4)N)N=5)=O)P(O)(O)=O"  
J1F  InChI             InChI                 1.03   "InChI=1S/C24H32N13O10P/c1-24(2)16(32-13-18(35-24)33-23(26)34-20(13)42)21(43)28-4-11(39)36(8-48(44,45)46)5-10(38)27-3-9-14(40)15(41)22(47-9)37-7-31-12-17(25)29-6-30-19(12)37/h6-7,9,14-15,22,40-41H,3-5,8H2,1-2H3,(H,27,38)(H,28,43)(H2,25,29,30)(H2,44,45,46)(H4,26,33,34,35,42)/t9-,14-,15-,22-/m1/s1"  
J1F  InChIKey          InChI                 1.03   IHZBIHWJVSGIOO-MDNHXVGFSA-N  
J1F  SMILES_CANONICAL  CACTVS                3.385  "CC1(C)NC2=C(N=C1C(=O)NCC(=O)N(CC(=O)NC[C@H]3O[C@H]([C@H](O)[C@@H]3O)n4cnc5c(N)ncnc45)C[P](O)(O)=O)C(=O)NC(=N2)N"  
J1F  SMILES            CACTVS                3.385  "CC1(C)NC2=C(N=C1C(=O)NCC(=O)N(CC(=O)NC[CH]3O[CH]([CH](O)[CH]3O)n4cnc5c(N)ncnc45)C[P](O)(O)=O)C(=O)NC(=N2)N"  
J1F  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "CC1(C(=NC2=C(N1)N=C(NC2=O)N)C(=O)NCC(=O)N(CC(=O)NC[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4ncnc5N)O)O)CP(=O)(O)O)C"  
J1F  SMILES            "OpenEye OEToolkits"  2.0.6  "CC1(C(=NC2=C(N1)N=C(NC2=O)N)C(=O)NCC(=O)N(CC(=O)NCC3C(C(C(O3)n4cnc5c4ncnc5N)O)O)CP(=O)(O)O)C"  
#   #
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
J1F  "SYSTEMATIC NAME"  ACDLabs               12.01  "5'-{[N-(2-amino-7,7-dimethyl-4-oxo-3,4,7,8-tetrahydropteridine-6-carbonyl)glycyl-N-(phosphonomethyl)glycyl]amino}-5'-deoxyadenosine"  
J1F  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.6  "[[2-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylamino]-2-oxidanylidene-ethyl]-[2-[(2-azanyl-7,7-dimethyl-4-oxidanylidene-3,8-dihydropteridin-6-yl)carbonylamino]ethanoyl]amino]methylphosphonic acid"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
J1F  "Create component"  2017-08-17  RCSB  
J1F  "Initial release"   2018-08-15  RCSB  
J1F  "Modify synonyms"   2021-03-13  RCSB  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     J1F
_pdbx_chem_comp_synonyms.name        "5'-{[N-(2-amino-7,7-dimethyl-4-oxo-3,4,7,8-tetrahydropteridine-6-carbonyl)glycyl-N-(phosphonomethyl)glycyl]amino}-5'-deoxyadenosine"
_pdbx_chem_comp_synonyms.provenance  PDB
_pdbx_chem_comp_synonyms.type        ?
##
