data_A1JOZ # _chem_comp.id A1JOZ _chem_comp.name "[[(2~{R},3~{S},4~{R},5~{R})-5-[(4~{E})-3-methyl-2-oxidanylidene-4-phenylmethoxyimino-pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]methylphosphonic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H25 N3 O11 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-09-10 _chem_comp.pdbx_modified_date 2026-08-07 _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 521.352 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1JOZ _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 9SME _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _chem_comp.pdbx_pcm ? # 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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 A1JOZ N1 N1 N 0 1 N N N N N N 22.524 36.599 -0.001 -3.245 -1.971 1.809 N1 A1JOZ 1 A1JOZ C4 C1 C 0 1 N N N N N N 17.654 29.459 4.573 5.224 1.362 1.090 C4 A1JOZ 2 A1JOZ C5 C2 C 0 1 N N R N N N 19.575 35.550 1.955 -0.037 -2.713 0.176 C5 A1JOZ 3 A1JOZ C6 C3 C 0 1 N N N N N N 20.706 34.575 -0.004 -1.779 -1.080 -0.370 C6 A1JOZ 4 A1JOZ C7 C4 C 0 1 N N N N N N 21.669 34.559 -0.940 -2.965 -0.493 -0.136 C7 A1JOZ 5 A1JOZ C8 C5 C 0 1 N N N N N N 21.518 36.621 0.968 -2.051 -2.512 1.505 C8 A1JOZ 6 A1JOZ C10 C6 C 0 1 N N N N N N 22.653 35.586 -0.965 -3.759 -0.950 1.015 C10 A1JOZ 7 A1JOZ C13 C7 C 0 1 Y N N N N N 27.097 34.366 -2.369 -7.883 1.904 -1.187 C13 A1JOZ 8 A1JOZ C15 C8 C 0 1 Y N N N N N 27.702 32.579 -0.885 -7.954 4.223 -1.780 C15 A1JOZ 9 A1JOZ C17 C9 C 0 1 Y N N N N N 25.622 32.514 -2.081 -6.805 3.529 0.203 C17 A1JOZ 10 A1JOZ O10 O1 O 0 1 N N N N N N 21.424 37.540 1.758 -1.611 -3.408 2.201 O10 A1JOZ 11 A1JOZ N N2 N 0 1 N N N N N N 20.634 35.562 0.941 -1.333 -2.088 0.452 N A1JOZ 12 A1JOZ O8 O2 O 0 1 N N N N N N 19.450 34.236 2.468 0.995 -1.707 0.082 O8 A1JOZ 13 A1JOZ C2 C10 C 0 1 N N R N N N 18.050 33.972 2.678 2.069 -2.332 -0.655 C2 A1JOZ 14 A1JOZ C3 C11 C 0 1 N N N N N N 17.790 32.489 2.757 2.986 -1.269 -1.263 C3 A1JOZ 15 A1JOZ O2 O3 O 0 1 N N N N N N 18.194 32.033 4.060 3.658 -0.564 -0.218 O2 A1JOZ 16 A1JOZ P P1 P 0 1 N N N N N N 17.297 31.168 5.019 4.704 0.628 -0.495 P A1JOZ 17 A1JOZ O7 O4 O 0 1 N N N N N N 15.834 31.551 5.117 4.060 1.665 -1.332 O7 A1JOZ 18 A1JOZ P1 P2 P 0 1 N N N N N N 19.383 28.971 4.578 6.409 2.711 0.776 P1 A1JOZ 19 A1JOZ O6 O5 O 0 1 N N N N N N 20.310 30.133 4.615 7.697 2.126 0.007 O6 A1JOZ 20 A1JOZ O5 O6 O 0 1 N N N N N N 19.630 28.254 3.244 5.764 3.749 -0.060 O5 A1JOZ 21 A1JOZ O4 O7 O 0 1 N N N N N N 19.599 27.981 5.755 6.868 3.359 2.176 O4 A1JOZ 22 A1JOZ O3 O8 O 0 1 N N N N N N 17.987 31.386 6.401 5.992 0.043 -1.264 O3 A1JOZ 23 A1JOZ C1 C12 C 0 1 N N S N N N 17.381 34.681 1.517 1.367 -3.138 -1.769 C1 A1JOZ 24 A1JOZ O1 O9 O 0 1 N N N N N N 15.991 34.866 1.776 2.046 -4.375 -1.997 O1 A1JOZ 25 A1JOZ C C13 C 0 1 N N R N N N 18.197 35.975 1.422 -0.051 -3.395 -1.210 C A1JOZ 26 A1JOZ O O10 O 0 1 N N N N N N 17.657 37.000 2.249 -0.290 -4.797 -1.076 O A1JOZ 27 A1JOZ C9 C14 C 0 1 N N N N N N 23.473 37.719 0.020 -4.002 -2.457 2.965 C9 A1JOZ 28 A1JOZ N2 N3 N 0 1 N N N N N N 23.682 35.569 -1.756 -4.918 -0.412 1.285 N2 A1JOZ 29 A1JOZ O9 O11 O 0 1 N N N N N N 23.625 34.479 -2.677 -5.425 0.626 0.465 O9 A1JOZ 30 A1JOZ C11 C15 C 0 1 N N N N N N 24.835 34.468 -3.454 -6.701 1.120 0.876 C11 A1JOZ 31 A1JOZ C12 C16 C 0 1 Y N N N N N 25.890 33.747 -2.662 -7.142 2.215 -0.062 C12 A1JOZ 32 A1JOZ C16 C17 C 0 1 Y N N N N N 26.517 31.941 -1.188 -7.219 4.534 -0.651 C16 A1JOZ 33 A1JOZ C14 C18 C 0 1 Y N N N N N 27.999 33.783 -1.487 -8.287 2.908 -2.047 C14 A1JOZ 34 A1JOZ H1 H1 H 0 1 N N N N N N 17.262 29.290 3.559 4.352 1.758 1.611 H1 A1JOZ 35 A1JOZ H2 H2 H 0 1 N N N N N N 17.122 28.810 5.284 5.699 0.598 1.706 H2 A1JOZ 36 A1JOZ H3 H3 H 0 1 N N N N N N 19.852 36.238 2.767 0.208 -3.437 0.953 H3 A1JOZ 37 A1JOZ H4 H4 H 0 1 N N N N N N 19.968 33.787 0.003 -1.178 -0.763 -1.209 H4 A1JOZ 38 A1JOZ H5 H5 H 0 1 N N N N N N 21.696 33.767 -1.673 -3.325 0.300 -0.775 H5 A1JOZ 39 A1JOZ H6 H6 H 0 1 N N N N N N 27.338 35.312 -2.832 -8.142 0.877 -1.396 H6 A1JOZ 40 A1JOZ H7 H7 H 0 1 N N N N N N 28.392 32.138 -0.181 -8.270 5.007 -2.452 H7 A1JOZ 41 A1JOZ H8 H8 H 0 1 N N N N N N 24.707 31.995 -2.327 -6.230 3.772 1.084 H8 A1JOZ 42 A1JOZ H9 H9 H 0 1 N N N N N N 17.720 34.441 3.616 2.638 -2.996 -0.004 H9 A1JOZ 43 A1JOZ H10 H10 H 0 1 N N N N N N 16.718 32.290 2.608 3.722 -1.750 -1.908 H10 A1JOZ 44 A1JOZ H11 H11 H 0 1 N N N N N N 18.371 31.967 1.983 2.392 -0.569 -1.850 H11 A1JOZ 45 A1JOZ H12 H12 H 0 1 N N N N N N 20.825 30.153 3.817 8.170 1.440 0.498 H12 A1JOZ 46 A1JOZ H13 H13 H 0 1 N N N N N N 19.841 27.129 5.412 7.500 4.085 2.085 H13 A1JOZ 47 A1JOZ H14 H14 H 0 1 N N N N N N 17.350 31.715 7.025 6.465 -0.643 -0.774 H14 A1JOZ 48 A1JOZ H15 H15 H 0 1 N N N N N N 17.529 34.094 0.598 1.317 -2.556 -2.689 H15 A1JOZ 49 A1JOZ H16 H16 H 0 1 N N N N N N 15.561 34.020 1.819 1.647 -4.922 -2.687 H16 A1JOZ 50 A1JOZ H17 H17 H 0 1 N N N N N N 18.279 36.296 0.373 -0.803 -2.938 -1.853 H17 A1JOZ 51 A1JOZ H18 H18 H 0 1 N N N N N N 18.185 37.785 2.166 -0.250 -5.285 -1.910 H18 A1JOZ 52 A1JOZ H19 H19 H 0 1 N N N N N N 23.213 38.406 0.839 -3.723 -1.884 3.849 H19 A1JOZ 53 A1JOZ H20 H20 H 0 1 N N N N N N 24.492 37.334 0.175 -5.069 -2.339 2.776 H20 A1JOZ 54 A1JOZ H21 H21 H 0 1 N N N N N N 23.426 38.257 -0.938 -3.777 -3.511 3.129 H21 A1JOZ 55 A1JOZ H22 H22 H 0 1 N N N N N N 24.662 33.946 -4.407 -7.429 0.310 0.856 H22 A1JOZ 56 A1JOZ H23 H23 H 0 1 N N N N N N 25.159 35.500 -3.655 -6.628 1.518 1.888 H23 A1JOZ 57 A1JOZ H24 H24 H 0 1 N N N N N N 26.285 30.992 -0.728 -6.967 5.562 -0.438 H24 A1JOZ 58 A1JOZ H25 H25 H 0 1 N N N N N N 28.936 34.275 -1.272 -8.861 2.665 -2.928 H25 A1JOZ 59 # 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 A1JOZ C11 O9 SING N N 1 A1JOZ C11 C12 SING N N 2 A1JOZ O9 N2 SING N N 3 A1JOZ C12 C13 DOUB Y N 4 A1JOZ C12 C17 SING Y N 5 A1JOZ C13 C14 SING Y N 6 A1JOZ C17 C16 DOUB Y N 7 A1JOZ N2 C10 DOUB N E 8 A1JOZ C14 C15 DOUB Y N 9 A1JOZ C16 C15 SING Y N 10 A1JOZ C10 C7 SING N N 11 A1JOZ C10 N1 SING N N 12 A1JOZ C7 C6 DOUB N N 13 A1JOZ C6 N SING N N 14 A1JOZ N1 C9 SING N N 15 A1JOZ N1 C8 SING N N 16 A1JOZ N C8 SING N N 17 A1JOZ N C5 SING N N 18 A1JOZ C8 O10 DOUB N N 19 A1JOZ C C1 SING N N 20 A1JOZ C C5 SING N N 21 A1JOZ C O SING N N 22 A1JOZ C1 O1 SING N N 23 A1JOZ C1 C2 SING N N 24 A1JOZ C5 O8 SING N N 25 A1JOZ O8 C2 SING N N 26 A1JOZ C2 C3 SING N N 27 A1JOZ C3 O2 SING N N 28 A1JOZ O5 P1 DOUB N N 29 A1JOZ O2 P SING N N 30 A1JOZ C4 P1 SING N N 31 A1JOZ C4 P SING N N 32 A1JOZ P1 O6 SING N N 33 A1JOZ P1 O4 SING N N 34 A1JOZ P O7 DOUB N N 35 A1JOZ P O3 SING N N 36 A1JOZ C4 H1 SING N N 37 A1JOZ C4 H2 SING N N 38 A1JOZ C5 H3 SING N N 39 A1JOZ C6 H4 SING N N 40 A1JOZ C7 H5 SING N N 41 A1JOZ C13 H6 SING N N 42 A1JOZ C15 H7 SING N N 43 A1JOZ C17 H8 SING N N 44 A1JOZ C2 H9 SING N N 45 A1JOZ C3 H10 SING N N 46 A1JOZ C3 H11 SING N N 47 A1JOZ O6 H12 SING N N 48 A1JOZ O4 H13 SING N N 49 A1JOZ O3 H14 SING N N 50 A1JOZ C1 H15 SING N N 51 A1JOZ O1 H16 SING N N 52 A1JOZ C H17 SING N N 53 A1JOZ O H18 SING N N 54 A1JOZ C9 H19 SING N N 55 A1JOZ C9 H20 SING N N 56 A1JOZ C9 H21 SING N N 57 A1JOZ C11 H22 SING N N 58 A1JOZ C11 H23 SING N N 59 A1JOZ C16 H24 SING N N 60 A1JOZ C14 H25 SING N N 61 # 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 A1JOZ InChI InChI 1.06 "InChI=1S/C18H25N3O11P2/c1-20-14(19-30-9-12-5-3-2-4-6-12)7-8-21(18(20)24)17-16(23)15(22)13(32-17)10-31-34(28,29)11-33(25,26)27/h2-8,13,15-17,22-23H,9-11H2,1H3,(H,28,29)(H2,25,26,27)/b19-14+/t13-,15-,16-,17-/m1/s1" A1JOZ InChIKey InChI 1.06 JOCMZOPRZSOYRO-XWJPGZQWSA-N A1JOZ SMILES_CANONICAL CACTVS 3.385 "CN/1C(=O)N(C=CC/1=N/OCc2ccccc2)[C@@H]3O[C@H](CO[P](O)(=O)C[P](O)(O)=O)[C@@H](O)[C@H]3O" A1JOZ SMILES CACTVS 3.385 "CN1C(=O)N(C=CC1=NOCc2ccccc2)[CH]3O[CH](CO[P](O)(=O)C[P](O)(O)=O)[CH](O)[CH]3O" A1JOZ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CN1/C(=N/OCc2ccccc2)/C=CN(C1=O)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(CP(=O)(O)O)O)O)O" A1JOZ SMILES "OpenEye OEToolkits" 2.0.7 "CN1C(=NOCc2ccccc2)C=CN(C1=O)C3C(C(C(O3)COP(=O)(CP(=O)(O)O)O)O)O" # _pdbx_chem_comp_identifier.comp_id A1JOZ _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-[(4~{E})-3-methyl-2-oxidanylidene-4-phenylmethoxyimino-pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]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 A1JOZ "Create component" 2025-09-10 PDBE A1JOZ "Initial release" 2026-08-12 RCSB #