data_5ZY
# 
_chem_comp.id                                    5ZY 
_chem_comp.name                                  "[[(3~{a}~{S},5~{R},6~{R},6~{a}~{R})-2-azanylidene-3-[(4~{R})-4-azanyl-5-oxidanylidene-pentyl]-6-oxidanyl-3~{a},5,6,6~{a}-tetrahydrofuro[2,3-d][1,3]oxazol-5-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen phosphate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C21 H32 N8 O14 P2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-02-10 
_chem_comp.pdbx_modified_date                    2023-01-20 
_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                        682.472 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     5ZY 
_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        7WR6 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBJ 
# 
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 
5ZY C18 C1  C 0 1 N N N -13.269 -1.211 13.395 3.254   1.713  -1.809 C18 5ZY 1  
5ZY C19 C2  C 0 1 N N R -13.345 -2.772 13.028 4.168   1.978  -0.610 C19 5ZY 2  
5ZY C21 C3  C 0 1 N N R -12.099 -3.757 11.307 5.985   1.189  0.550  C21 5ZY 3  
5ZY C23 C4  C 0 1 Y N N -10.291 -2.754 9.848  7.118   -0.904 -0.288 C23 5ZY 4  
5ZY C25 C5  C 0 1 Y N N -11.137 -3.079 7.882  8.673   -1.190 1.196  C25 5ZY 5  
5ZY C26 C6  C 0 1 Y N N -11.470 -3.178 6.536  9.744   -1.590 2.014  C26 5ZY 6  
5ZY C29 C7  C 0 1 Y N N -13.453 -4.217 7.136  9.331   0.223  3.381  C29 5ZY 7  
5ZY C31 C8  C 0 1 Y N N -12.024 -3.580 8.821  7.964   -0.031 1.551  C31 5ZY 8  
5ZY C32 C9  C 0 1 N N R -11.292 -3.670 12.664 6.535   2.405  -0.227 C32 5ZY 9  
5ZY O11 O1  O 0 1 N N N -14.452 2.648  15.846 -1.839  -1.124 -3.291 O11 5ZY 10 
5ZY C34 C10 C 0 1 N N S -12.389 -3.470 13.669 5.312   2.936  -1.008 C34 5ZY 11 
5ZY C37 C11 C 0 1 N N S -9.397  5.472  13.762 -6.043  -1.464 0.170  C37 5ZY 12 
5ZY C39 C12 C 0 1 N N N -7.045  5.807  14.587 -6.691  0.619  1.638  C39 5ZY 13 
5ZY O12 O2  O 0 1 N N N -12.862 1.039  16.896 -0.365  -2.999 -2.467 O12 5ZY 14 
5ZY C40 C13 C 0 1 N N N -6.934  6.348  16.092 -7.765  1.397  0.875  C40 5ZY 15 
5ZY O13 O3  O 0 1 N N N -12.788 1.470  14.353 -0.040  -0.530 -1.623 O13 5ZY 16 
5ZY C41 C14 C 0 1 N N N -6.083  5.367  16.916 -7.686  2.878  1.250  C41 5ZY 17 
5ZY C42 C15 C 0 1 N N R -4.671  5.906  17.274 -8.760  3.656  0.487  C42 5ZY 18 
5ZY C44 C16 C 0 1 N N N -4.033  5.057  18.373 -8.604  5.129  0.762  C44 5ZY 19 
5ZY C02 C17 C 0 1 N N N -8.517  7.614  13.522 -7.523  -1.759 1.908  C02 5ZY 20 
5ZY C04 C18 C 0 1 N N R -10.545 6.506  13.524 -6.531  -2.933 0.289  C04 5ZY 21 
5ZY C05 C19 C 0 1 N N R -11.185 6.662  14.908 -5.257  -3.775 0.144  C05 5ZY 22 
5ZY C07 C20 C 0 1 N N R -10.966 5.492  15.554 -4.098  -2.773 0.256  C07 5ZY 23 
5ZY C08 C21 C 0 1 N N N -12.275 4.638  15.572 -3.315  -2.738 -1.058 C08 5ZY 24 
5ZY N01 N1  N 0 1 N N N -7.669  8.585  13.597 -8.552  -1.516 2.667  N01 5ZY 25 
5ZY N22 N2  N 0 1 Y N N -11.484 -3.364 10.017 6.986   0.121  0.601  N22 5ZY 26 
5ZY N24 N3  N 0 1 Y N N -10.083 -2.580 8.567  8.108   -1.672 0.063  N24 5ZY 27 
5ZY N27 N4  N 0 1 N N N -10.584 -2.673 5.527  10.483  -2.720 1.711  N27 5ZY 28 
5ZY N28 N5  N 0 1 Y N N -12.608 -3.741 6.198  10.031  -0.857 3.085  N28 5ZY 29 
5ZY N30 N6  N 0 1 Y N N -13.170 -4.140 8.407  8.326   0.639  2.641  N30 5ZY 30 
5ZY N38 N7  N 0 1 N N N -8.259  6.264  13.988 -6.767  -0.799 1.279  N38 5ZY 31 
5ZY N43 N8  N 0 1 N N N -4.794  7.258  17.708 -10.090 3.214  0.927  N43 5ZY 32 
5ZY O03 O4  O 0 1 N N N -9.834  7.704  12.983 -7.045  -2.995 1.627  O03 5ZY 33 
5ZY O06 O5  O 0 1 N N N -10.577 7.686  15.583 -5.180  -4.741 1.194  O06 5ZY 34 
5ZY O09 O6  O 0 1 N N N -11.943 3.346  16.065 -2.172  -1.894 -0.910 O09 5ZY 35 
5ZY O15 O7  O 0 1 N N N -11.016 1.050  12.521 1.572   -0.267 -3.547 O15 5ZY 36 
5ZY O16 O8  O 0 1 N N N -10.341 0.760  14.868 0.172   1.741  -2.930 O16 5ZY 37 
5ZY O17 O9  O 0 1 N N N -11.946 -0.946 13.852 2.141   0.920  -1.393 O17 5ZY 38 
5ZY O20 O10 O 0 1 N N N -13.091 -2.946 11.441 4.831   0.760  -0.205 O20 5ZY 39 
5ZY O33 O11 O 0 1 N N N -10.591 -4.899 12.895 7.021   3.399  0.678  O33 5ZY 40 
5ZY O35 O12 O 0 1 N N N -12.905 -4.711 14.052 5.006   4.274  -0.609 O35 5ZY 41 
5ZY O36 O13 O 0 1 N N N -9.820  4.687  14.752 -4.651  -1.484 0.521  O36 5ZY 42 
5ZY O45 O14 O 0 1 N N N -4.662  4.773  19.330 -9.507  5.748  1.271  O45 5ZY 43 
5ZY P10 P1  P 0 1 N N N -13.038 2.102  15.837 -1.120  -1.626 -2.099 P10 5ZY 44 
5ZY P14 P2  P 0 1 N N N -11.457 0.602  13.891 0.974   0.450  -2.399 P14 5ZY 45 
5ZY H1  H1  H 0 1 N N N -13.488 -0.604 12.504 2.896   2.661  -2.209 H1  5ZY 46 
5ZY H2  H2  H 0 1 N N N -13.995 -0.975 14.187 3.812   1.180  -2.580 H2  5ZY 47 
5ZY H3  H3  H 0 1 N N N -14.356 -3.138 13.261 3.595   2.394  0.218  H3  5ZY 48 
5ZY H4  H4  H 0 1 N N N -12.452 -4.794 11.213 5.692   1.483  1.558  H4  5ZY 49 
5ZY H5  H5  H 0 1 N N N -9.619  -2.458 10.640 6.491   -1.059 -1.153 H5  5ZY 50 
5ZY H6  H6  H 0 1 N N N -14.383 -4.671 6.828  9.599   0.791  4.260  H6  5ZY 51 
5ZY H7  H7  H 0 1 N N N -10.614 -2.804 12.642 7.324   2.096  -0.912 H7  5ZY 52 
5ZY H8  H8  H 0 1 N N N -11.995 -2.922 14.538 5.495   2.889  -2.081 H8  5ZY 53 
5ZY H9  H9  H 0 1 N N N -9.270  4.896  12.834 -6.234  -1.010 -0.802 H9  5ZY 54 
5ZY H10 H10 H 0 1 N N N -7.035  4.707  14.594 -5.707  1.008  1.378  H10 5ZY 55 
5ZY H11 H11 H 0 1 N N N -6.190  6.178  14.003 -6.854  0.732  2.710  H11 5ZY 56 
5ZY H12 H12 H 0 1 N N N -13.680 0.920  17.365 0.129   -3.386 -1.731 H12 5ZY 57 
5ZY H13 H13 H 0 1 N N N -6.458  7.340  16.093 -7.602  1.284  -0.197 H13 5ZY 58 
5ZY H14 H14 H 0 1 N N N -7.939  6.423  16.532 -8.750  1.008  1.136  H14 5ZY 59 
5ZY H15 H15 H 0 1 N N N -6.617  5.147  17.852 -7.849  2.990  2.322  H15 5ZY 60 
5ZY H16 H16 H 0 1 N N N -5.963  4.440  16.335 -6.702  3.267  0.989  H16 5ZY 61 
5ZY H17 H17 H 0 1 N N N -4.040  5.852  16.375 -8.651  3.472  -0.582 H17 5ZY 62 
5ZY H18 H18 H 0 1 N N N -3.012  4.719  18.274 -7.684  5.632  0.502  H18 5ZY 63 
5ZY H19 H19 H 0 1 N N N -11.272 6.111  12.800 -7.280  -3.185 -0.462 H19 5ZY 64 
5ZY H20 H20 H 0 1 N N N -12.261 6.854  14.781 -5.238  -4.268 -0.828 H20 5ZY 65 
5ZY H21 H21 H 0 1 N N N -10.624 5.647  16.588 -3.436  -3.064 1.071  H21 5ZY 66 
5ZY H22 H22 H 0 1 N N N -13.021 5.109  16.229 -2.991  -3.747 -1.314 H22 5ZY 67 
5ZY H23 H23 H 0 1 N N N -12.683 4.557  14.554 -3.954  -2.350 -1.852 H23 5ZY 68 
5ZY H24 H24 H 0 1 N N N -8.041  9.436  13.227 -9.036  -2.250 3.077  H24 5ZY 69 
5ZY H25 H25 H 0 1 N N N -10.983 -2.829 4.624  10.265  -3.246 0.926  H25 5ZY 70 
5ZY H26 H26 H 0 1 N N N -10.446 -1.692 5.665  11.220  -2.985 2.283  H26 5ZY 71 
5ZY H27 H27 H 0 1 N N N -3.890  7.617  17.942 -10.244 2.244  0.695  H27 5ZY 72 
5ZY H28 H28 H 0 1 N N N -5.192  7.809  16.974 -10.216 3.374  1.915  H28 5ZY 73 
5ZY H30 H30 H 0 1 N N N -10.975 7.781  16.440 -4.394  -5.304 1.154  H30 5ZY 74 
5ZY H31 H31 H 0 1 N N N -9.578  1.112  14.424 -0.247  2.260  -2.230 H31 5ZY 75 
5ZY H32 H32 H 0 1 N N N -10.108 -4.840 13.711 7.378   4.186  0.243  H32 5ZY 76 
5ZY H33 H33 H 0 1 N N N -13.599 -4.583 14.688 5.691   4.918  -0.834 H33 5ZY 77 
# 
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 
5ZY N27 C26 SING N N 1  
5ZY N28 C26 DOUB Y N 2  
5ZY N28 C29 SING Y N 3  
5ZY C26 C25 SING Y N 4  
5ZY C29 N30 DOUB Y N 5  
5ZY C25 N24 SING Y N 6  
5ZY C25 C31 DOUB Y N 7  
5ZY N30 C31 SING Y N 8  
5ZY N24 C23 DOUB Y N 9  
5ZY C31 N22 SING Y N 10 
5ZY C23 N22 SING Y N 11 
5ZY N22 C21 SING N N 12 
5ZY C21 O20 SING N N 13 
5ZY C21 C32 SING N N 14 
5ZY O20 C19 SING N N 15 
5ZY O15 P14 DOUB N N 16 
5ZY C32 O33 SING N N 17 
5ZY C32 C34 SING N N 18 
5ZY O03 C02 SING N N 19 
5ZY O03 C04 SING N N 20 
5ZY C19 C18 SING N N 21 
5ZY C19 C34 SING N N 22 
5ZY C18 O17 SING N N 23 
5ZY C02 N01 DOUB N N 24 
5ZY C02 N38 SING N N 25 
5ZY C04 C37 SING N N 26 
5ZY C04 C05 SING N N 27 
5ZY C34 O35 SING N N 28 
5ZY C37 N38 SING N N 29 
5ZY C37 O36 SING N N 30 
5ZY O17 P14 SING N N 31 
5ZY P14 O13 SING N N 32 
5ZY P14 O16 SING N N 33 
5ZY N38 C39 SING N N 34 
5ZY O13 P10 SING N N 35 
5ZY C39 C40 SING N N 36 
5ZY O36 C07 SING N N 37 
5ZY C05 C07 SING N N 38 
5ZY C05 O06 SING N N 39 
5ZY C07 C08 SING N N 40 
5ZY C08 O09 SING N N 41 
5ZY P10 O11 DOUB N N 42 
5ZY P10 O09 SING N N 43 
5ZY P10 O12 SING N N 44 
5ZY C40 C41 SING N N 45 
5ZY C41 C42 SING N N 46 
5ZY C42 N43 SING N N 47 
5ZY C42 C44 SING N N 48 
5ZY C44 O45 DOUB N N 49 
5ZY C18 H1  SING N N 50 
5ZY C18 H2  SING N N 51 
5ZY C19 H3  SING N N 52 
5ZY C21 H4  SING N N 53 
5ZY C23 H5  SING N N 54 
5ZY C29 H6  SING N N 55 
5ZY C32 H7  SING N N 56 
5ZY C34 H8  SING N N 57 
5ZY C37 H9  SING N N 58 
5ZY C39 H10 SING N N 59 
5ZY C39 H11 SING N N 60 
5ZY O12 H12 SING N N 61 
5ZY C40 H13 SING N N 62 
5ZY C40 H14 SING N N 63 
5ZY C41 H15 SING N N 64 
5ZY C41 H16 SING N N 65 
5ZY C42 H17 SING N N 66 
5ZY C44 H18 SING N N 67 
5ZY C04 H19 SING N N 68 
5ZY C05 H20 SING N N 69 
5ZY C07 H21 SING N N 70 
5ZY C08 H22 SING N N 71 
5ZY C08 H23 SING N N 72 
5ZY N01 H24 SING N N 73 
5ZY N27 H25 SING N N 74 
5ZY N27 H26 SING N N 75 
5ZY N43 H27 SING N N 76 
5ZY N43 H28 SING N N 77 
5ZY O06 H30 SING N N 78 
5ZY O16 H31 SING N N 79 
5ZY O33 H32 SING N N 80 
5ZY O35 H33 SING N N 81 
# 
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 
5ZY InChI            InChI                1.03  "InChI=1S/C21H32N8O14P2/c22-9(4-30)2-1-3-28-20-16(42-21(28)24)14(32)11(41-20)6-39-45(36,37)43-44(34,35)38-5-10-13(31)15(33)19(40-10)29-8-27-12-17(23)25-7-26-18(12)29/h4,7-11,13-16,19-20,24,31-33H,1-3,5-6,22H2,(H,34,35)(H,36,37)(H2,23,25,26)/b24-21-/t9-,10-,11-,13-,14-,15-,16-,19-,20+/m1/s1" 
5ZY InChIKey         InChI                1.03  ZUWDPDYSBKPILX-IHCGFKTISA-N                                                                                                                                                                                                                                                                         
5ZY SMILES_CANONICAL CACTVS               3.385 "N[C@H](CCCN1[C@H]2O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@H]3O[C@H]([C@H](O)[C@@H]3O)n4cnc5c(N)ncnc45)[C@@H](O)[C@H]2OC1=N)C=O"                                                                                                                                                                         
5ZY SMILES           CACTVS               3.385 "N[CH](CCCN1[CH]2O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O)[CH]3O)n4cnc5c(N)ncnc45)[CH](O)[CH]2OC1=N)C=O"                                                                                                                                                                                    
5ZY SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C\1/N([C@@H]2[C@H](O1)[C@@H]([C@H](O2)COP(=O)(O)OP(=O)(O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4ncnc5N)O)O)O)CCC[C@H](C=O)N"                                                                                                                                                                 
5ZY SMILES           "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C5C(O4)N(C(=N)O5)CCCC(C=O)N)O)O)O)N"                                                                                                                                                                                                         
# 
_pdbx_chem_comp_identifier.comp_id           5ZY 
_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        "[[(3~{a}~{S},5~{R},6~{R},6~{a}~{R})-2-azanylidene-3-[(4~{R})-4-azanyl-5-oxidanylidene-pentyl]-6-oxidanyl-3~{a},5,6,6~{a}-tetrahydrofuro[2,3-d][1,3]oxazol-5-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen phosphate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
5ZY "Create component" 2022-02-10 PDBJ 
5ZY "Initial release"  2023-01-25 RCSB 
# 
