data_DOU
# 
_chem_comp.id                                    DOU 
_chem_comp.name                                  "[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-[[oxidanyl(phosphonooxy)phosphoryl]methyl]phosphinic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C11 H18 N5 O12 P3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-07-18 
_chem_comp.pdbx_modified_date                    2024-07-19 
_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                        505.208 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     DOU 
_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        8PU4 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
# 
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.pdbx_backbone_atom_flag 
_chem_comp_atom.pdbx_n_terminal_atom_flag 
_chem_comp_atom.pdbx_c_terminal_atom_flag 
_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 
DOU PG     P1  P 0 1 N N N N N N 15.283 58.291 48.578 -7.026 -1.560 0.531  PG     DOU 1  
DOU O1G    O1  O 0 1 N N N N N N 15.560 59.134 49.782 -7.920 -0.445 0.146  O1G    DOU 2  
DOU O2G    O2  O 0 1 N N N N N N 14.226 58.966 47.684 -7.495 -2.159 1.950  O2G    DOU 3  
DOU O3G    O3  O 0 1 N N N N N N 14.855 56.792 48.845 -7.097 -2.716 -0.588 O3G    DOU 4  
DOU PB     P2  P 0 1 N N N N N N 17.878 57.577 48.440 -4.625 0.012  -0.210 PB     DOU 5  
DOU O1B    O4  O 0 1 N N N N N N 17.468 56.277 49.101 -4.512 -0.474 -1.603 O1B    DOU 6  
DOU O2B    O5  O 0 1 N N N N N N 19.004 57.345 47.383 -5.328 1.461  -0.202 O2B    DOU 7  
DOU O3B    O6  O 0 1 N N N N N N 16.599 58.178 47.642 -5.514 -1.020 0.649  O3B    DOU 8  
DOU PA     P3  P 0 1 N N N N N N 19.740 58.118 50.818 -1.956 1.308  -0.446 PA     DOU 9  
DOU O1A    O7  O 0 1 N N N N N N 20.417 59.221 51.616 -1.843 0.822  -1.839 O1A    DOU 10 
DOU O2A    O8  O 0 1 N N N N N N 19.155 57.116 51.869 -2.658 2.757  -0.438 O2A    DOU 11 
DOU C3A    C1  C 0 1 N N N N N N 18.469 58.789 49.680 -2.962 0.140  0.526  C3A    DOU 12 
DOU "O5'"  O9  O 0 1 N N N N N N 20.710 57.213 49.972 -0.487 1.421  0.204  "O5'"  DOU 13 
DOU "C5'"  C2  C 0 1 N N N N N N 22.089 57.575 50.218 0.570  2.179  -0.387 "C5'"  DOU 14 
DOU "C4'"  C3  C 0 1 N N S N N N 22.915 56.883 49.163 1.823  2.073  0.484  "C4'"  DOU 15 
DOU "O4'"  O10 O 0 1 N N N N N N 23.071 55.485 49.506 2.316  0.723  0.469  "O4'"  DOU 16 
DOU "C3'"  C4  C 0 1 N N S N N N 22.265 56.858 47.784 2.936  2.973  -0.088 "C3'"  DOU 17 
DOU "O3'"  O11 O 0 1 N N N N N N 22.429 58.085 47.078 3.325  3.958  0.872  "O3'"  DOU 18 
DOU "C2'"  C5  C 0 1 N N R N N N 22.948 55.648 47.143 4.105  1.998  -0.369 "C2'"  DOU 19 
DOU "O2'"  O12 O 0 1 N N N N N N 24.260 55.990 46.697 5.356  2.579  0.007  "O2'"  DOU 20 
DOU "C1'"  C6  C 0 1 N N R N N N 22.998 54.679 48.334 3.755  0.799  0.549  "C1'"  DOU 21 
DOU N9     N1  N 0 1 Y N N N N N 21.839 53.769 48.435 4.365  -0.433 0.042  N9     DOU 22 
DOU C8     C7  C 0 1 Y N N N N N 20.515 54.130 48.392 3.799  -1.314 -0.831 C8     DOU 23 
DOU N7     N2  N 0 1 Y N N N N N 19.688 53.118 48.482 4.619  -2.297 -1.066 N7     DOU 24 
DOU C5     C8  C 0 1 Y N N N N N 20.505 52.007 48.584 5.760  -2.110 -0.361 C5     DOU 25 
DOU C6     C9  C 0 1 Y N N N N N 20.264 50.637 48.711 6.963  -2.823 -0.221 C6     DOU 26 
DOU N6     N3  N 0 1 N N N N N N 19.022 50.105 48.755 7.167  -4.009 -0.905 N6     DOU 27 
DOU N1     N4  N 0 1 Y N N N N N 21.314 49.790 48.796 7.901  -2.331 0.583  N1     DOU 28 
DOU C2     C10 C 0 1 Y N N N N N 22.547 50.312 48.749 7.715  -1.200 1.238  C2     DOU 29 
DOU N3     N5  N 0 1 Y N N N N N 22.908 51.590 48.630 6.605  -0.499 1.138  N3     DOU 30 
DOU C4     C11 C 0 1 Y N N N N N 21.857 52.403 48.551 5.613  -0.910 0.354  C4     DOU 31 
DOU H1     H1  H 0 1 N N N N N N 13.958 59.789 48.076 -8.398 -2.503 1.953  H1     DOU 32 
DOU H3     H2  H 0 1 N N N N N N 14.833 56.630 49.781 -6.535 -3.480 -0.401 H3     DOU 33 
DOU H4     H3  H 0 1 N N N N N N 19.224 56.421 47.352 -5.435 1.842  0.680  H4     DOU 34 
DOU H5     H4  H 0 1 N N N N N N 19.355 57.423 52.745 -2.766 3.138  0.444  H5     DOU 35 
DOU H3A2   H5  H 0 0 N N N N N N 18.900 59.649 49.147 -3.046 0.498  1.552  H3A2   DOU 36 
DOU H3A1   H6  H 0 0 N N N N N N 17.608 59.122 50.278 -2.487 -0.841 0.521  H3A1   DOU 37 
DOU "H5'1" H7  H 0 0 N N N N N N 22.214 58.665 50.142 0.785  1.788  -1.382 "H5'1" DOU 38 
DOU "H5'2" H8  H 0 0 N N N N N N 22.396 57.240 51.220 0.268  3.224  -0.465 "H5'2" DOU 39 
DOU "H4'"  H9  H 0 1 N N N N N N 23.899 57.370 49.091 1.590  2.372  1.506  "H4'"  DOU 40 
DOU "H3'"  H10 H 0 1 N N N N N N 21.195 56.633 47.904 2.605  3.450  -1.010 "H3'"  DOU 41 
DOU "HO3'" H11 H 0 0 N N N N N N 22.009 58.021 46.228 4.024  4.552  0.564  "HO3'" DOU 42 
DOU "H2'"  H12 H 0 1 N N N N N N 22.328 55.235 46.334 4.118  1.697  -1.416 "H2'"  DOU 43 
DOU "HO2'" H13 H 0 0 N N N N N N 24.669 55.229 46.302 5.576  3.386  -0.478 "HO2'" DOU 44 
DOU "H1'"  H14 H 0 1 N N N N N N 23.914 54.077 48.245 4.074  0.993  1.573  "H1'"  DOU 45 
DOU H8     H15 H 0 1 N N N N N N 20.186 55.154 48.293 2.814  -1.211 -1.264 H8     DOU 46 
DOU HN62   H16 H 0 0 N N N N N N 19.088 49.112 48.849 6.476  -4.357 -1.488 HN62   DOU 47 
DOU HN61   H17 H 0 0 N N N N N N 18.526 50.482 49.537 8.002  -4.491 -0.800 HN61   DOU 48 
DOU H2     H18 H 0 1 N N N N N N 23.358 49.602 48.817 8.503  -0.837 1.881  H2     DOU 49 
# 
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 
DOU PG    O1G    DOUB N N 1  
DOU PG    O2G    SING N N 2  
DOU PG    O3G    SING N N 3  
DOU PG    O3B    SING N N 4  
DOU PB    O1B    DOUB N N 5  
DOU PB    O2B    SING N N 6  
DOU PB    O3B    SING N N 7  
DOU PB    C3A    SING N N 8  
DOU PA    O1A    DOUB N N 9  
DOU PA    O2A    SING N N 10 
DOU PA    C3A    SING N N 11 
DOU PA    "O5'"  SING N N 12 
DOU "O5'" "C5'"  SING N N 13 
DOU "C5'" "C4'"  SING N N 14 
DOU "C4'" "O4'"  SING N N 15 
DOU "C4'" "C3'"  SING N N 16 
DOU "O4'" "C1'"  SING N N 17 
DOU "C3'" "O3'"  SING N N 18 
DOU "C3'" "C2'"  SING N N 19 
DOU "C2'" "O2'"  SING N N 20 
DOU "C2'" "C1'"  SING N N 21 
DOU "C1'" N9     SING N N 22 
DOU N9    C8     SING Y N 23 
DOU N9    C4     SING Y N 24 
DOU C8    N7     DOUB Y N 25 
DOU N7    C5     SING Y N 26 
DOU C5    C6     DOUB Y N 27 
DOU C5    C4     SING Y N 28 
DOU C6    N6     SING N N 29 
DOU C6    N1     SING Y N 30 
DOU N1    C2     DOUB Y N 31 
DOU C2    N3     SING Y N 32 
DOU N3    C4     DOUB Y N 33 
DOU O2G   H1     SING N N 34 
DOU O3G   H3     SING N N 35 
DOU O2B   H4     SING N N 36 
DOU O2A   H5     SING N N 37 
DOU C3A   H3A2   SING N N 38 
DOU C3A   H3A1   SING N N 39 
DOU "C5'" "H5'1" SING N N 40 
DOU "C5'" "H5'2" SING N N 41 
DOU "C4'" "H4'"  SING N N 42 
DOU "C3'" "H3'"  SING N N 43 
DOU "O3'" "HO3'" SING N N 44 
DOU "C2'" "H2'"  SING N N 45 
DOU "O2'" "HO2'" SING N N 46 
DOU "C1'" "H1'"  SING N N 47 
DOU C8    H8     SING N N 48 
DOU N6    HN62   SING N N 49 
DOU N6    HN61   SING N N 50 
DOU C2    H2     SING N N 51 
# 
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 
DOU InChI            InChI                1.06  "InChI=1S/C11H18N5O12P3/c12-9-6-10(14-2-13-9)16(3-15-6)11-8(18)7(17)5(27-11)1-26-29(19,20)4-30(21,22)28-31(23,24)25/h2-3,5,7-8,11,17-18H,1,4H2,(H,19,20)(H,21,22)(H2,12,13,14)(H2,23,24,25)" 
DOU InChIKey         InChI                1.06  CAWZRIXWFRFUQB-UHFFFAOYSA-N                                                                                                                                                                  
DOU SMILES_CANONICAL CACTVS               3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@@H](CO[P](O)(=O)C[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O"                                                                                                        
DOU SMILES           CACTVS               3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)C[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O"                                                                                                               
DOU SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(CP(=O)(O)OP(=O)(O)O)O)O)O)N"                                                                                                         
DOU SMILES           "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(CP(=O)(O)OP(=O)(O)O)O)O)O)N"                                                                                                                           
# 
_pdbx_chem_comp_identifier.comp_id           DOU 
_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        "[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-[[oxidanyl(phosphonooxy)phosphoryl]methyl]phosphinic 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 
DOU "Create component" 2023-07-18 PDBE 
DOU "Initial release"  2024-07-24 RCSB 
# 
