data_ZJ3
# 
_chem_comp.id                                    ZJ3 
_chem_comp.name                                  "[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl [(2R,3S,4R,5R)-3,4-dihydroxy-5-{[2-oxo-4-(trifluoromethyl)-2H-1-benzopyran-7-yl]oxy}oxolan-2-yl]methyl dihydrogen diphosphate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C25 H26 F3 N5 O16 P2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-03-14 
_chem_comp.pdbx_modified_date                    2023-05-12 
_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                        771.441 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     ZJ3 
_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        8GIA 
_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 
ZJ3 C02  C1  C 0 1 N N R -26.276 -5.076 30.949 6.523  -1.031 1.532  C02  ZJ3 1  
ZJ3 C03  C2  C 0 1 N N R -25.383 -4.241 31.711 5.700  -0.866 0.236  C03  ZJ3 2  
ZJ3 C05  C3  C 0 1 N N R -25.892 -3.005 29.760 4.272  -0.175 1.895  C05  ZJ3 3  
ZJ3 C06  C4  C 0 1 N N S -26.050 -4.518 29.546 5.562  -0.565 2.649  C06  ZJ3 4  
ZJ3 C08  C5  C 0 1 N N N -27.213 -2.235 29.562 3.625  1.053  2.541  C08  ZJ3 5  
ZJ3 C14  C6  C 0 1 N N N -32.611 0.234  28.831 -3.326 3.823  -0.189 C14  ZJ3 6  
ZJ3 C15  C7  C 0 1 N N R -33.756 -0.213 29.751 -3.778 3.498  -1.614 C15  ZJ3 7  
ZJ3 C17  C8  C 0 1 N N R -33.906 -0.802 31.994 -5.502 1.959  -1.467 C17  ZJ3 8  
ZJ3 C18  C9  C 0 1 N N R -34.054 0.719  31.988 -6.123 3.177  -2.196 C18  ZJ3 9  
ZJ3 C19  C10 C 0 1 N N S -34.383 0.965  30.516 -5.064 4.278  -1.947 C19  ZJ3 10 
ZJ3 C23  C11 C 0 1 Y N N -35.291 -2.752 32.300 -5.662 -0.410 -1.372 C23  ZJ3 11 
ZJ3 C24  C12 C 0 1 Y N N -36.552 -3.349 32.515 -4.879 -0.352 -0.221 C24  ZJ3 12 
ZJ3 C25  C13 C 0 1 Y N N -36.638 -4.735 32.749 -4.542 -1.496 0.443  C25  ZJ3 13 
ZJ3 C26  C14 C 0 1 Y N N -35.471 -5.524 32.769 -4.985 -2.734 -0.034 C26  ZJ3 14 
ZJ3 C27  C15 C 0 1 N N N -35.536 -6.911 33.007 -4.639 -3.977 0.658  C27  ZJ3 15 
ZJ3 C28  C16 C 0 1 N N N -36.880 -7.633 33.223 -3.794 -3.958 1.906  C28  ZJ3 16 
ZJ3 C32  C17 C 0 1 N N N -34.325 -7.623 33.008 -5.100 -5.148 0.146  C32  ZJ3 17 
ZJ3 C33  C18 C 0 1 N N N -33.130 -6.907 32.793 -5.889 -5.139 -1.023 C33  ZJ3 18 
ZJ3 C36  C19 C 0 1 Y N N -34.211 -4.929 32.556 -5.777 -2.799 -1.196 C36  ZJ3 19 
ZJ3 C37  C20 C 0 1 Y N N -34.123 -3.540 32.319 -6.110 -1.628 -1.859 C37  ZJ3 20 
ZJ3 C43  C21 C 0 1 Y N N -24.825 -3.744 34.069 7.327  -1.193 -1.676 C43  ZJ3 21 
ZJ3 C45  C22 C 0 1 Y N N -22.887 -2.997 35.139 8.366  -2.969 -2.700 C45  ZJ3 22 
ZJ3 C47  C23 C 0 1 Y N N -24.826 -3.415 36.425 8.832  -0.866 -3.531 C47  ZJ3 23 
ZJ3 C49  C24 C 0 1 Y N N -25.502 -3.782 35.311 7.969  -0.317 -2.567 C49  ZJ3 24 
ZJ3 C51  C25 C 0 1 Y N N -26.868 -4.424 33.721 6.739  0.889  -1.251 C51  ZJ3 25 
ZJ3 F29  F1  F 0 1 N N N -37.643 -7.457 32.125 -2.550 -3.387 1.619  F29  ZJ3 26 
ZJ3 F30  F2  F 0 1 N N N -37.513 -7.146 34.305 -4.437 -3.203 2.893  F30  ZJ3 27 
ZJ3 F31  F3  F 0 1 N N N -36.688 -8.962 33.343 -3.612 -5.267 2.366  F31  ZJ3 28 
ZJ3 N42  N1  N 0 1 Y N N -25.696 -4.147 33.110 6.558  -0.404 -0.858 N42  ZJ3 29 
ZJ3 N44  N2  N 0 1 Y N N -23.537 -3.345 34.013 7.553  -2.499 -1.778 N44  ZJ3 30 
ZJ3 N46  N3  N 0 1 Y N N -23.533 -3.033 36.321 8.992  -2.185 -3.559 N46  ZJ3 31 
ZJ3 N48  N4  N 0 1 N N N -25.455 -3.440 37.707 9.492  -0.054 -4.436 N48  ZJ3 32 
ZJ3 N50  N5  N 0 1 Y N N -26.754 -4.206 35.049 7.567  0.938  -2.253 N50  ZJ3 33 
ZJ3 O01  O1  O 0 1 N N N -25.845 -6.445 31.009 6.888  -2.399 1.724  O01  ZJ3 34 
ZJ3 O04  O2  O 0 1 N N N -25.405 -2.912 31.122 4.708  0.134  0.553  O04  ZJ3 35 
ZJ3 O07  O3  O 0 1 N N N -24.805 -4.987 28.984 5.304  -1.632 3.564  O07  ZJ3 36 
ZJ3 O09  O4  O 0 1 N N N -28.284 -3.073 29.999 2.412  1.368  1.855  O09  ZJ3 37 
ZJ3 O11  O5  O 0 1 N N N -29.889 -1.090 29.534 0.131  2.583  1.370  O11  ZJ3 38 
ZJ3 O13  O6  O 0 1 N N N -32.076 -0.942 28.200 -2.073 3.187  0.070  O13  ZJ3 39 
ZJ3 O16  O7  O 0 1 N N N -33.254 -1.130 30.749 -4.087 2.098  -1.722 O16  ZJ3 40 
ZJ3 O20  O8  O 0 1 N N N -35.807 0.859  30.257 -4.879 5.069  -3.123 O20  ZJ3 41 
ZJ3 O21  O9  O 0 1 N N N -35.158 1.211  32.757 -6.267 2.915  -3.594 O21  ZJ3 42 
ZJ3 O22  O10 O 0 1 N N N -35.237 -1.338 32.054 -5.994 0.736  -2.019 O22  ZJ3 43 
ZJ3 O34  O11 O 0 1 N N N -33.143 -5.640 32.577 -6.203 -3.996 -1.653 O34  ZJ3 44 
ZJ3 O35  O12 O 0 1 N N N -32.046 -7.490 32.838 -6.295 -6.195 -1.472 O35  ZJ3 45 
ZJ3 O38  O13 O 0 1 N N N -30.011 0.203  27.389 -2.174 2.614  2.634  O38  ZJ3 46 
ZJ3 O39  O14 O 0 1 N N N -30.177 -2.292 27.240 -1.101 4.743  1.804  O39  ZJ3 47 
ZJ3 O40  O15 O 0 1 N N N -29.562 -2.009 31.865 2.256  3.988  2.022  O40  ZJ3 48 
ZJ3 O41  O16 O 0 1 N N N -30.757 -3.406 30.106 1.104  2.493  3.697  O41  ZJ3 49 
ZJ3 P10  P1  P 0 1 N N N -29.659 -2.394 30.399 1.468  2.605  2.267  P10  ZJ3 50 
ZJ3 P12  P2  P 0 1 N N N -30.501 -1.056 28.065 -1.300 3.313  1.477  P12  ZJ3 51 
ZJ3 H021 H1  H 0 0 N N N -27.325 -4.954 31.257 7.412  -0.400 1.503  H021 ZJ3 52 
ZJ3 H031 H2  H 0 0 N N N -24.364 -4.643 31.610 5.220  -1.808 -0.031 H031 ZJ3 53 
ZJ3 H051 H3  H 0 0 N N N -25.140 -2.617 29.057 3.571  -1.010 1.883  H051 ZJ3 54 
ZJ3 H061 H4  H 0 0 N N N -26.909 -4.733 28.893 5.974  0.297  3.173  H061 ZJ3 55 
ZJ3 H081 H5  H 0 0 N N N -27.198 -1.309 30.156 3.406  0.840  3.587  H081 ZJ3 56 
ZJ3 H082 H6  H 0 0 N N N -27.344 -1.986 28.499 4.309  1.899  2.478  H082 ZJ3 57 
ZJ3 H141 H7  H 0 0 N N N -31.828 0.732  29.422 -3.216 4.902  -0.080 H141 ZJ3 58 
ZJ3 H142 H8  H 0 0 N N N -32.992 0.929  28.068 -4.071 3.460  0.520  H142 ZJ3 59 
ZJ3 H151 H9  H 0 0 N N N -34.534 -0.700 29.144 -2.991 3.761  -2.321 H151 ZJ3 60 
ZJ3 H171 H10 H 0 0 N N N -33.304 -1.120 32.858 -5.707 2.006  -0.397 H171 ZJ3 61 
ZJ3 H181 H11 H 0 0 N N N -33.106 1.205  32.263 -7.080 3.449  -1.752 H181 ZJ3 62 
ZJ3 H191 H12 H 0 0 N N N -33.967 1.923  30.172 -5.357 4.906  -1.106 H191 ZJ3 63 
ZJ3 H241 H13 H 0 0 N N N -37.447 -2.745 32.500 -4.537 0.603  0.148  H241 ZJ3 64 
ZJ3 H251 H14 H 0 0 N N N -37.601 -5.194 32.914 -3.934 -1.445 1.335  H251 ZJ3 65 
ZJ3 H321 H15 H 0 0 N N N -34.310 -8.691 33.169 -4.862 -6.082 0.632  H321 ZJ3 66 
ZJ3 H371 H16 H 0 0 N N N -33.160 -3.081 32.152 -6.717 -1.664 -2.751 H371 ZJ3 67 
ZJ3 H451 H17 H 0 0 N N N -21.852 -2.690 35.095 8.525  -4.036 -2.758 H451 ZJ3 68 
ZJ3 H511 H18 H 0 0 N N N -27.762 -4.768 33.223 6.264  1.747  -0.797 H511 ZJ3 69 
ZJ3 H481 H19 H 0 0 N N N -24.801 -3.149 38.405 9.361  0.907  -4.410 H481 ZJ3 70 
ZJ3 H482 H20 H 0 0 N N N -26.239 -2.820 37.705 10.085 -0.445 -5.096 H482 ZJ3 71 
ZJ3 H011 H21 H 0 0 N N N -25.989 -6.785 31.884 7.407  -2.559 2.524  H011 ZJ3 72 
ZJ3 H071 H22 H 0 0 N N N -24.858 -5.924 28.834 6.080  -1.918 4.065  H071 ZJ3 73 
ZJ3 H201 H23 H 0 0 N N N -36.264 1.562  30.703 -5.658 5.582  -3.379 H201 ZJ3 74 
ZJ3 H211 H24 H 0 0 N N N -34.987 1.074  33.681 -6.852 2.172  -3.796 H211 ZJ3 75 
ZJ3 H1   H25 H 0 1 N N N -29.589 -0.022 26.568 -2.343 1.674  2.485  H1   ZJ3 76 
ZJ3 H2   H26 H 0 1 N N N -30.222 -2.479 32.361 2.526  4.129  1.104  H2   ZJ3 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 
ZJ3 O39 P12  DOUB N N 1  
ZJ3 O38 P12  SING N N 2  
ZJ3 P12 O13  SING N N 3  
ZJ3 P12 O11  SING N N 4  
ZJ3 O13 C14  SING N N 5  
ZJ3 C14 C15  SING N N 6  
ZJ3 O07 C06  SING N N 7  
ZJ3 O11 P10  SING N N 8  
ZJ3 C06 C05  SING N N 9  
ZJ3 C06 C02  SING N N 10 
ZJ3 C08 C05  SING N N 11 
ZJ3 C08 O09  SING N N 12 
ZJ3 C15 C19  SING N N 13 
ZJ3 C15 O16  SING N N 14 
ZJ3 C05 O04  SING N N 15 
ZJ3 O09 P10  SING N N 16 
ZJ3 O41 P10  DOUB N N 17 
ZJ3 O20 C19  SING N N 18 
ZJ3 P10 O40  SING N N 19 
ZJ3 C19 C18  SING N N 20 
ZJ3 O16 C17  SING N N 21 
ZJ3 C02 O01  SING N N 22 
ZJ3 C02 C03  SING N N 23 
ZJ3 O04 C03  SING N N 24 
ZJ3 C03 N42  SING N N 25 
ZJ3 C18 C17  SING N N 26 
ZJ3 C18 O21  SING N N 27 
ZJ3 C17 O22  SING N N 28 
ZJ3 O22 C23  SING N N 29 
ZJ3 F29 C28  SING N N 30 
ZJ3 C23 C37  DOUB Y N 31 
ZJ3 C23 C24  SING Y N 32 
ZJ3 C37 C36  SING Y N 33 
ZJ3 C24 C25  DOUB Y N 34 
ZJ3 C36 O34  SING N N 35 
ZJ3 C36 C26  DOUB Y N 36 
ZJ3 O34 C33  SING N N 37 
ZJ3 C25 C26  SING Y N 38 
ZJ3 C26 C27  SING N N 39 
ZJ3 C33 O35  DOUB N N 40 
ZJ3 C33 C32  SING N N 41 
ZJ3 C27 C32  DOUB N N 42 
ZJ3 C27 C28  SING N N 43 
ZJ3 N42 C51  SING Y N 44 
ZJ3 N42 C43  SING Y N 45 
ZJ3 C28 F31  SING N N 46 
ZJ3 C28 F30  SING N N 47 
ZJ3 C51 N50  DOUB Y N 48 
ZJ3 N44 C43  DOUB Y N 49 
ZJ3 N44 C45  SING Y N 50 
ZJ3 C43 C49  SING Y N 51 
ZJ3 N50 C49  SING Y N 52 
ZJ3 C45 N46  DOUB Y N 53 
ZJ3 C49 C47  DOUB Y N 54 
ZJ3 N46 C47  SING Y N 55 
ZJ3 C47 N48  SING N N 56 
ZJ3 C02 H021 SING N N 57 
ZJ3 C03 H031 SING N N 58 
ZJ3 C05 H051 SING N N 59 
ZJ3 C06 H061 SING N N 60 
ZJ3 C08 H081 SING N N 61 
ZJ3 C08 H082 SING N N 62 
ZJ3 C14 H141 SING N N 63 
ZJ3 C14 H142 SING N N 64 
ZJ3 C15 H151 SING N N 65 
ZJ3 C17 H171 SING N N 66 
ZJ3 C18 H181 SING N N 67 
ZJ3 C19 H191 SING N N 68 
ZJ3 C24 H241 SING N N 69 
ZJ3 C25 H251 SING N N 70 
ZJ3 C32 H321 SING N N 71 
ZJ3 C37 H371 SING N N 72 
ZJ3 C45 H451 SING N N 73 
ZJ3 C51 H511 SING N N 74 
ZJ3 N48 H481 SING N N 75 
ZJ3 N48 H482 SING N N 76 
ZJ3 O01 H011 SING N N 77 
ZJ3 O07 H071 SING N N 78 
ZJ3 O20 H201 SING N N 79 
ZJ3 O21 H211 SING N N 80 
ZJ3 O38 H1   SING N N 81 
ZJ3 O40 H2   SING N N 82 
# 
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 
ZJ3 SMILES           ACDLabs              12.01 "Nc1ncnc2c1ncn2C1OC(COP(=O)(O)OP(=O)(O)OCC2OC(Oc3cc4OC(=O)C=C(c4cc3)C(F)(F)F)C(O)C2O)C(O)C1O"                                                                                                                                                                                                                
ZJ3 InChI            InChI                1.06  "InChI=1S/C25H26F3N5O16P2/c26-25(27,28)11-4-15(34)46-12-3-9(1-2-10(11)12)45-24-20(38)18(36)14(48-24)6-44-51(41,42)49-50(39,40)43-5-13-17(35)19(37)23(47-13)33-8-32-16-21(29)30-7-31-22(16)33/h1-4,7-8,13-14,17-20,23-24,35-38H,5-6H2,(H,39,40)(H,41,42)(H2,29,30,31)/t13-,14-,17-,18-,19-,20-,23-,24+/m1/s1" 
ZJ3 InChIKey         InChI                1.06  JNMHMJORTGCLAH-IPSZZCKZSA-N                                                                                                                                                                                                                                                                                  
ZJ3 SMILES_CANONICAL CACTVS               3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@H]4O[C@H](Oc5ccc6c(OC(=O)C=C6C(F)(F)F)c5)[C@H](O)[C@@H]4O)[C@@H](O)[C@H]3O"                                                                                                                                                                       
ZJ3 SMILES           CACTVS               3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH](Oc5ccc6c(OC(=O)C=C6C(F)(F)F)c5)[CH](O)[CH]4O)[CH](O)[CH]3O"                                                                                                                                                                                  
ZJ3 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc2c(cc1O[C@@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OC[C@@H]4[C@H]([C@H]([C@@H](O4)n5cnc6c5ncnc6N)O)O)O)O)OC(=O)C=C2C(F)(F)F"                                                                                                                                                                       
ZJ3 SMILES           "OpenEye OEToolkits" 2.0.7 "c1cc2c(cc1OC3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)n5cnc6c5ncnc6N)O)O)O)O)OC(=O)C=C2C(F)(F)F"                                                                                                                                                                                                            
# 
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 
ZJ3 "SYSTEMATIC NAME" ACDLabs              12.01 "[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl [(2R,3S,4R,5R)-3,4-dihydroxy-5-{[2-oxo-4-(trifluoromethyl)-2H-1-benzopyran-7-yl]oxy}oxolan-2-yl]methyl dihydrogen diphosphate (non-preferred name)"                           
ZJ3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-3,4-bis(oxidanyl)-5-[2-oxidanylidene-4-(trifluoromethyl)chromen-7-yl]oxy-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 
ZJ3 "Create component" 2023-03-14 RCSB 
ZJ3 "Initial release"  2023-05-17 RCSB 
# 
