data_GRJ
# 
_chem_comp.id                                    GRJ 
_chem_comp.name                                  "[[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-oxidanyl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{S},3~{S},4~{S},5~{R})-3,4-bis(oxidanyl)-5-[(1~{S})-1-oxidanylethyl]oxolan-2-yl] hydrogen phosphate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C16 H25 N5 O15 P2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-05-17 
_chem_comp.pdbx_modified_date                    2023-03-24 
_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                        589.342 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     GRJ 
_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        7XPV 
_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 
GRJ N1  N1  N 0 1 Y N N 13.329 11.400 -9.692  -5.686 1.493  -2.035 N1  GRJ 1  
GRJ N3  N2  N 0 1 Y N N 10.982 13.890 -8.186  -8.241 2.855  0.223  N3  GRJ 2  
GRJ C4  C1  C 0 1 N N S 19.606 14.154 -16.905 5.938  2.093  -0.990 C4  GRJ 3  
GRJ C5  C2  C 0 1 N N S 19.649 13.937 -15.400 5.807  0.615  -0.558 C5  GRJ 4  
GRJ C6  C3  C 0 1 N N N 18.572 13.461 -11.886 -1.449 -2.647 -0.174 C6  GRJ 5  
GRJ C7  C4  C 0 1 N N R 17.959 14.191 -10.697 -2.544 -1.991 0.669  C7  GRJ 6  
GRJ C8  C5  C 0 1 N N S 18.448 13.593 -9.386  -3.800 -2.890 0.714  C8  GRJ 7  
GRJ C10 C6  C 0 1 N N R 16.083 13.800 -9.372  -4.295 -0.507 0.611  C10 GRJ 8  
GRJ C13 C7  C 0 1 Y N N 13.636 13.506 -8.935  -6.133 1.161  0.116  C13 GRJ 9  
GRJ C15 C8  C 0 1 Y N N 11.263 12.694 -8.719  -7.626 2.730  -0.945 C15 GRJ 10 
GRJ N   N3  N 0 1 Y N N 14.806 13.042 -9.379  -5.055 0.398  -0.255 N   GRJ 11 
GRJ C   C9  C 0 1 N N N 15.310 12.544 -15.200 8.526  0.525  2.739  C   GRJ 12 
GRJ O   O1  O 0 1 N N N 18.442 13.236 -15.084 6.507  0.535  0.702  O   GRJ 13 
GRJ C1  C10 C 0 1 N N S 16.410 12.576 -16.256 8.243  1.771  1.897  C1  GRJ 14 
GRJ C11 C11 C 0 1 Y N N 14.624 11.786 -9.832  -4.821 0.635  -1.578 C11 GRJ 15 
GRJ C12 C12 C 0 1 Y N N 12.659 12.427 -9.137  -6.529 1.860  -1.038 C12 GRJ 16 
GRJ C14 C13 C 0 1 Y N N 11.919 14.844 -8.023  -7.835 2.176  1.289  C14 GRJ 17 
GRJ C2  C14 C 0 1 N N R 17.420 13.685 -15.980 7.688  1.351  0.534  C2  GRJ 18 
GRJ C3  C15 C 0 1 N N S 18.128 14.133 -17.249 7.204  2.588  -0.254 C3  GRJ 19 
GRJ C9  C16 C 0 1 N N R 17.213 13.013 -8.732  -4.978 -1.891 0.674  C9  GRJ 20 
GRJ N2  N4  N 0 1 Y N N 13.216 14.669 -8.384  -6.806 1.346  1.247  N2  GRJ 21 
GRJ N4  N5  N 0 1 N N N 11.553 16.029 -7.477  -8.511 2.343  2.486  N4  GRJ 22 
GRJ O1  O2  O 0 1 N N N 20.833 13.252 -14.967 4.432  0.268  -0.386 O1  GRJ 23 
GRJ O10 O3  O 0 1 N N N 17.260 13.207 -7.317  -5.770 -2.004 1.858  O10 GRJ 24 
GRJ O11 O4  O 0 1 N N N 18.999 14.619 -8.557  -3.828 -3.650 1.923  O11 GRJ 25 
GRJ O12 O5  O 0 1 N N N 20.284 13.089 -17.578 4.792  2.839  -0.576 O12 GRJ 26 
GRJ O13 O6  O 0 1 N N N 17.681 15.444 -17.606 8.198  3.003  -1.193 O13 GRJ 27 
GRJ O14 O7  O 0 1 N N N 17.083 11.312 -16.297 7.286  2.593  2.568  O14 GRJ 28 
GRJ O2  O8  O 0 1 N N N 22.321 11.251 -14.499 4.510  -2.224 0.447  O2  GRJ 29 
GRJ O3  O9  O 0 1 N N N 20.537 10.977 -16.257 4.226  -1.664 -1.998 O3  GRJ 30 
GRJ O4  O10 O 0 1 N N N 19.940 11.136 -13.692 2.264  -1.217 -0.475 O4  GRJ 31 
GRJ O5  O11 O 0 1 N N N 20.535 10.166 -11.435 0.851  -2.189 -2.467 O5  GRJ 32 
GRJ O6  O12 O 0 1 N N N 21.543 12.397 -12.021 1.503  -3.623 -0.495 O6  GRJ 33 
GRJ O7  O13 O 0 1 N N N 18.979 12.156 -11.475 -0.259 -1.858 -0.107 O7  GRJ 34 
GRJ O8  O14 O 0 1 N N N 16.533 14.063 -10.703 -2.990 -0.765 0.049  O8  GRJ 35 
GRJ O9  O15 O 0 1 N N N 10.375 11.826 -8.858  -8.049 3.427  -2.027 O9  GRJ 36 
GRJ P   P1  P 0 1 N N N 20.938 11.646 -14.849 3.866  -1.219 -0.633 P   GRJ 37 
GRJ P1  P2  P 0 1 N N N 20.257 11.436 -12.142 1.098  -2.252 -0.877 P1  GRJ 38 
GRJ H1  H1  H 0 1 N N N 20.041 15.132 -17.159 6.071  2.165  -2.069 H1  GRJ 39 
GRJ H2  H2  H 0 1 N N N 19.619 14.926 -14.920 6.275  -0.038 -1.294 H2  GRJ 40 
GRJ H3  H3  H 0 1 N N N 19.445 14.021 -12.251 -1.244 -3.647 0.211  H3  GRJ 41 
GRJ H4  H4  H 0 1 N N N 17.827 13.378 -12.691 -1.781 -2.717 -1.209 H4  GRJ 42 
GRJ H5  H5  H 0 1 N N N 18.248 15.252 -10.739 -2.180 -1.797 1.679  H5  GRJ 43 
GRJ H6  H6  H 0 1 N N N 19.182 12.798 -9.584  -3.829 -3.549 -0.154 H6  GRJ 44 
GRJ H7  H7  H 0 1 N N N 15.947 14.743 -8.823  -4.201 -0.084 1.611  H7  GRJ 45 
GRJ H8  H8  H 0 1 N N N 14.798 13.517 -15.174 9.256  -0.101 2.227  H8  GRJ 46 
GRJ H9  H9  H 0 1 N N N 14.585 11.755 -15.449 8.921  0.825  3.709  H9  GRJ 47 
GRJ H10 H10 H 0 1 N N N 15.753 12.337 -14.215 7.602  -0.035 2.880  H10 GRJ 48 
GRJ H11 H11 H 0 1 N N N 15.943 12.773 -17.232 9.167  2.332  1.755  H11 GRJ 49 
GRJ H12 H12 H 0 1 N N N 15.404 11.168 -10.251 -4.035 0.178  -2.160 H12 GRJ 50 
GRJ H13 H13 H 0 1 N N N 16.890 14.546 -15.546 8.445  0.809  -0.032 H13 GRJ 51 
GRJ H14 H14 H 0 1 N N N 17.940 13.412 -18.059 6.956  3.402  0.426  H14 GRJ 52 
GRJ H15 H15 H 0 1 N N N 17.118 11.947 -8.985  -5.589 -2.056 -0.213 H15 GRJ 53 
GRJ H17 H17 H 0 1 N N N 12.350 16.631 -7.421  -9.268 2.948  2.536  H17 GRJ 54 
GRJ H18 H18 H 0 1 N N N 10.852 16.456 -8.048  -8.228 1.855  3.275  H18 GRJ 55 
GRJ H19 H19 H 0 1 N N N 16.479 12.838 -6.920  -6.174 -2.875 1.980  H19 GRJ 56 
GRJ H20 H20 H 0 1 N N N 19.302 14.239 -7.741  -4.596 -4.233 2.004  H20 GRJ 57 
GRJ H21 H21 H 0 1 N N N 20.334 12.333 -17.005 3.961  2.530  -0.964 H21 GRJ 58 
GRJ H22 H22 H 0 1 N N N 16.756 15.417 -17.819 7.924  3.739  -1.757 H22 GRJ 59 
GRJ H23 H23 H 0 1 N N N 16.453 10.622 -16.469 6.437  2.157  2.728  H23 GRJ 60 
GRJ H24 H24 H 0 1 N N N 22.672 10.689 -15.180 4.314  -1.993 1.365  H24 GRJ 61 
GRJ H25 H25 H 0 1 N N N 21.409 10.194 -11.065 0.582  -1.318 -2.789 H25 GRJ 62 
GRJ H16 H16 H 0 1 N N N 9.547  12.165 -8.537  -7.628 4.292  -2.126 H16 GRJ 63 
# 
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 
GRJ O13 C3  SING N N 1  
GRJ O12 C4  SING N N 2  
GRJ C3  C4  SING N N 3  
GRJ C3  C2  SING N N 4  
GRJ C4  C5  SING N N 5  
GRJ O14 C1  SING N N 6  
GRJ O3  P   DOUB N N 7  
GRJ C1  C2  SING N N 8  
GRJ C1  C   SING N N 9  
GRJ C2  O   SING N N 10 
GRJ C5  O   SING N N 11 
GRJ C5  O1  SING N N 12 
GRJ O1  P   SING N N 13 
GRJ P   O2  SING N N 14 
GRJ P   O4  SING N N 15 
GRJ O4  P1  SING N N 16 
GRJ P1  O6  DOUB N N 17 
GRJ P1  O7  SING N N 18 
GRJ P1  O5  SING N N 19 
GRJ C6  O7  SING N N 20 
GRJ C6  C7  SING N N 21 
GRJ O8  C7  SING N N 22 
GRJ O8  C10 SING N N 23 
GRJ C7  C8  SING N N 24 
GRJ C11 N1  DOUB Y N 25 
GRJ C11 N   SING Y N 26 
GRJ N1  C12 SING Y N 27 
GRJ C8  C9  SING N N 28 
GRJ C8  O11 SING N N 29 
GRJ N   C10 SING N N 30 
GRJ N   C13 SING Y N 31 
GRJ C10 C9  SING N N 32 
GRJ C12 C13 DOUB Y N 33 
GRJ C12 C15 SING Y N 34 
GRJ C13 N2  SING Y N 35 
GRJ O9  C15 SING N N 36 
GRJ C9  O10 SING N N 37 
GRJ C15 N3  DOUB Y N 38 
GRJ N2  C14 DOUB Y N 39 
GRJ N3  C14 SING Y N 40 
GRJ C14 N4  SING N N 41 
GRJ C4  H1  SING N N 42 
GRJ C5  H2  SING N N 43 
GRJ C6  H3  SING N N 44 
GRJ C6  H4  SING N N 45 
GRJ C7  H5  SING N N 46 
GRJ C8  H6  SING N N 47 
GRJ C10 H7  SING N N 48 
GRJ C   H8  SING N N 49 
GRJ C   H9  SING N N 50 
GRJ C   H10 SING N N 51 
GRJ C1  H11 SING N N 52 
GRJ C11 H12 SING N N 53 
GRJ C2  H13 SING N N 54 
GRJ C3  H14 SING N N 55 
GRJ C9  H15 SING N N 56 
GRJ N4  H17 SING N N 57 
GRJ N4  H18 SING N N 58 
GRJ O10 H19 SING N N 59 
GRJ O11 H20 SING N N 60 
GRJ O12 H21 SING N N 61 
GRJ O13 H22 SING N N 62 
GRJ O14 H23 SING N N 63 
GRJ O2  H24 SING N N 64 
GRJ O5  H25 SING N N 65 
GRJ O9  H16 SING N N 66 
# 
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 
GRJ InChI            InChI                1.03  "InChI=1S/C16H25N5O15P2/c1-4(22)11-8(24)10(26)15(34-11)35-38(30,31)36-37(28,29)32-2-5-7(23)9(25)14(33-5)21-3-18-6-12(21)19-16(17)20-13(6)27/h3-5,7-11,14-15,22-26H,2H2,1H3,(H,28,29)(H,30,31)(H3,17,19,20,27)/t4-,5+,7+,8-,9+,10-,11+,14+,15-/m0/s1" 
GRJ InChIKey         InChI                1.03  MBFMULBITZROEC-MREAOPIZSA-N                                                                                                                                                                                                                          
GRJ SMILES_CANONICAL CACTVS               3.385 "C[C@H](O)[C@H]1O[C@@H](O[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)n3cnc4c(O)nc(N)nc34)[C@@H](O)[C@@H]1O"                                                                                                                                 
GRJ SMILES           CACTVS               3.385 "C[CH](O)[CH]1O[CH](O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)n3cnc4c(O)nc(N)nc34)[CH](O)[CH]1O"                                                                                                                                              
GRJ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H]([C@@H]1[C@H]([C@@H]([C@@H](O1)OP(=O)(O)OP(=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3nc(nc4O)N)O)O)O)O)O"                                                                                                                                 
GRJ SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C1C(C(C(O1)OP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)n3cnc4c3nc(nc4O)N)O)O)O)O)O"                                                                                                                                                                           
# 
_pdbx_chem_comp_identifier.comp_id           GRJ 
_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-(2-azanyl-6-oxidanyl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{S},3~{S},4~{S},5~{R})-3,4-bis(oxidanyl)-5-[(1~{S})-1-oxidanylethyl]oxolan-2-yl] 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 
GRJ "Create component" 2022-05-17 PDBJ 
GRJ "Initial release"  2023-03-29 RCSB 
# 
