data_A1MBE # _chem_comp.id A1MBE _chem_comp.name "(1~{R},6~{S},8~{R},9~{R},10~{S},15~{R},17~{R},18~{R})-8,17-bis(6-aminopurin-9-yl)-3,12-bis(oxidanyl)-3,12-bis(oxidanylidene)-2,7,11,13,16-pentaoxa-4-thia-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecane-9,18-diol" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C20 H24 N10 O11 P2 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-08-19 _chem_comp.pdbx_modified_date 2026-08-21 _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 674.477 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1MBE _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 9WBU _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ _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 A1MBE N1 N1 N 0 1 Y N N N N N -33.897 -29.830 137.244 -8.509 1.492 -1.167 N1 A1MBE 1 A1MBE N3 N2 N 0 1 Y N N N N N -28.396 -34.135 139.929 6.865 -0.572 -1.336 N3 A1MBE 2 A1MBE C4 C1 C 0 1 N N R N N N -28.799 -29.867 137.080 -4.210 -0.678 0.781 C4 A1MBE 3 A1MBE C5 C2 C 0 1 Y N N N N N -28.812 -35.325 139.363 7.144 0.578 -0.677 C5 A1MBE 4 A1MBE C6 C3 C 0 1 Y N N N N N -30.091 -35.843 139.181 8.228 1.473 -0.667 C6 A1MBE 5 A1MBE C7 C4 C 0 1 Y N N N N N -32.984 -28.853 137.282 -8.246 0.213 -0.969 C7 A1MBE 6 A1MBE C8 C5 C 0 1 Y N N N N N -29.047 -37.681 138.220 7.112 2.752 0.898 C8 A1MBE 7 A1MBE C10 C6 C 0 1 Y N N N N N -32.086 -31.338 137.171 -6.387 2.036 -0.315 C10 A1MBE 8 A1MBE C13 C7 C 0 1 Y N N N N N -30.094 -32.068 137.069 -4.401 1.826 0.529 C13 A1MBE 9 A1MBE C15 C8 C 0 1 N N N N N N -26.065 -31.766 135.724 -0.826 -0.114 1.603 C15 A1MBE 10 A1MBE C17 C9 C 0 1 N N R N N N -23.366 -34.570 137.953 2.045 -0.590 -0.973 C17 A1MBE 11 A1MBE C20 C10 C 0 1 N N R N N N -25.232 -35.631 138.948 3.849 -0.314 0.603 C20 A1MBE 12 A1MBE P1 P1 P 0 1 N N N N N N -25.477 -34.613 135.204 0.784 2.208 0.357 P1 A1MBE 13 A1MBE P2 P2 P 0 1 N N N N N N -25.051 -30.894 139.975 -0.453 -3.735 0.205 P2 A1MBE 14 A1MBE C1 C11 C 0 1 N N S N N N -26.674 -30.597 136.468 -2.006 -1.076 1.466 C1 A1MBE 15 A1MBE O1 O1 O 0 1 N N N N N N -28.026 -30.408 136.016 -3.227 -0.401 1.776 O1 A1MBE 16 A1MBE S1 S1 S 0 1 N N N N N N -27.077 -33.253 135.477 -1.155 1.417 0.698 S1 A1MBE 17 A1MBE C2 C12 C 0 1 N N S N N N -26.768 -30.718 137.993 -2.089 -1.614 0.032 C2 A1MBE 18 A1MBE N2 N3 N 0 1 Y N N N N N -26.630 -35.353 139.252 5.151 -0.163 -0.048 N2 A1MBE 19 A1MBE O2 O2 O 0 1 N N N N N N -27.424 -28.517 138.609 -4.190 -2.455 -0.886 O2 A1MBE 20 A1MBE C3 C13 C 0 1 N N R N N N -27.941 -29.807 138.345 -3.514 -1.272 -0.453 C3 A1MBE 21 A1MBE O3 O3 O 0 1 N N N N N N -25.947 -35.587 134.148 0.927 2.560 -1.073 O3 A1MBE 22 A1MBE N4 N4 N 0 1 Y N N N N N -31.659 -28.940 137.263 -7.105 -0.204 -0.462 N4 A1MBE 23 A1MBE O4 O4 O 0 1 N N N N N N -25.170 -35.467 136.516 1.891 1.114 0.760 O4 A1MBE 24 A1MBE N5 N5 N 0 1 Y N N N N N -27.789 -37.285 138.336 6.075 1.941 0.921 N5 A1MBE 25 A1MBE O5 O5 O 0 1 N N N N N N -22.682 -35.694 137.409 0.691 -0.233 -1.214 O5 A1MBE 26 A1MBE N6 N6 N 0 1 Y N N N N N -30.174 -37.047 138.574 8.164 2.535 0.130 N6 A1MBE 27 A1MBE O6 O6 O 0 1 N N N N N N -24.410 -32.219 139.340 0.556 -3.314 -0.976 O6 A1MBE 28 A1MBE N7 N7 N 0 1 N N N N N N -31.195 -35.193 139.543 9.335 1.253 -1.468 N7 A1MBE 29 A1MBE O7 O7 O 0 1 N N N N N N -25.603 -30.205 138.635 -1.879 -3.023 -0.003 O7 A1MBE 30 A1MBE N8 N8 N 0 1 Y N N N N N -31.331 -32.500 137.104 -5.277 2.689 0.104 N8 A1MBE 31 A1MBE O8 O8 O 0 1 N N N N N N -26.254 -31.169 140.805 -0.651 -5.334 0.189 O8 A1MBE 32 A1MBE C9 C14 C 0 1 Y N N N N N -31.270 -30.224 137.197 -6.157 0.663 -0.124 C9 A1MBE 33 A1MBE N9 N9 N 0 1 Y N N N N N -29.989 -30.703 137.152 -4.897 0.562 0.409 N9 A1MBE 34 A1MBE O9 O9 O 0 1 N N N N N N -23.988 -30.023 140.539 0.115 -3.330 1.510 O9 A1MBE 35 A1MBE N10 N10 N 0 1 N N N N N N -34.384 -32.081 137.163 -7.904 3.770 -1.071 N10 A1MBE 36 A1MBE O10 O10 O 0 1 N N N N N N -24.405 -35.184 140.021 3.456 -1.694 0.581 O10 A1MBE 37 A1MBE C11 C15 C 0 1 Y N N N N N -27.741 -36.084 138.931 6.049 0.853 0.159 C11 A1MBE 38 A1MBE O11 O11 O 0 1 N N N N N N -24.186 -33.858 135.055 0.984 3.530 1.255 O11 A1MBE 39 A1MBE C12 C16 C 0 1 Y N N N N N -33.473 -31.114 137.213 -7.621 2.432 -0.859 C12 A1MBE 40 A1MBE C14 C17 C 0 1 Y N N N N N -27.092 -34.199 139.830 5.695 -1.009 -0.967 C14 A1MBE 41 A1MBE C16 C18 C 0 1 N N R N N N -24.856 -34.800 137.722 2.792 0.508 -0.166 C16 A1MBE 42 A1MBE C18 C19 C 0 1 N N R N N N -23.299 -34.412 139.486 2.149 -1.797 -0.006 C18 A1MBE 43 A1MBE C19 C20 C 0 1 N N N N N N -23.373 -32.994 140.021 1.960 -3.105 -0.759 C19 A1MBE 44 A1MBE H1 H1 H 0 1 N N N N N N -29.100 -28.840 136.826 -4.935 -1.393 1.171 H1 A1MBE 45 A1MBE H2 H2 H 0 1 N N N N N N -33.381 -27.850 137.336 -8.996 -0.518 -1.233 H2 A1MBE 46 A1MBE H3 H3 H 0 1 N N N N N N -29.185 -38.656 137.776 7.102 3.628 1.530 H3 A1MBE 47 A1MBE H4 H4 H 0 1 N N N N N N -29.240 -32.724 136.983 -3.425 2.074 0.920 H4 A1MBE 48 A1MBE H5 H5 H 0 1 N N N N N N -25.166 -32.073 136.279 -0.672 0.117 2.658 H5 A1MBE 49 A1MBE H6 H6 H 0 1 N N N N N N -25.774 -31.402 134.728 0.072 -0.583 1.206 H6 A1MBE 50 A1MBE H7 H7 H 0 1 N N N N N N -23.051 -33.634 137.469 2.570 -0.801 -1.903 H7 A1MBE 51 A1MBE H8 H8 H 0 1 N N N N N N -25.079 -36.700 138.739 3.901 0.036 1.631 H8 A1MBE 52 A1MBE H9 H9 H 0 1 N N N N N N -26.086 -29.697 136.235 -1.876 -1.910 2.162 H9 A1MBE 53 A1MBE H10 H10 H 0 1 N N N N N N -26.981 -31.757 138.286 -1.359 -1.109 -0.601 H10 A1MBE 54 A1MBE H11 H11 H 0 1 N N N N N N -26.902 -28.541 139.402 -5.108 -2.308 -1.152 H11 A1MBE 55 A1MBE H12 H12 H 0 1 N N N N N N -28.497 -30.213 139.203 -3.477 -0.540 -1.260 H12 A1MBE 56 A1MBE H13 H13 H 0 1 N N N N N N -21.746 -35.587 137.534 0.168 -0.931 -1.630 H13 A1MBE 57 A1MBE H14 H14 H 0 1 N N N N N N -31.998 -35.734 139.293 9.369 0.475 -2.045 H14 A1MBE 58 A1MBE H15 H15 H 0 1 N N N N N N -31.186 -35.047 140.532 10.076 1.879 -1.452 H15 A1MBE 59 A1MBE H16 H16 H 0 1 N N N N N N -26.174 -30.720 141.638 0.168 -5.833 0.314 H16 A1MBE 60 A1MBE H17 H17 H 0 1 N N N N N N -35.299 -31.678 137.156 -7.248 4.447 -0.843 H17 A1MBE 61 A1MBE H18 H18 H 0 1 N N N N N N -34.251 -32.621 136.332 -8.759 4.031 -1.447 H18 A1MBE 62 A1MBE H19 H19 H 0 1 N N N N N N -23.770 -34.100 134.236 0.349 4.234 1.064 H19 A1MBE 63 A1MBE H20 H20 H 0 1 N N N N N N -26.438 -33.412 140.174 5.225 -1.908 -1.338 H20 A1MBE 64 A1MBE H21 H21 H 0 1 N N N N N N -25.378 -33.833 137.774 3.254 1.225 -0.823 H21 A1MBE 65 A1MBE H22 H22 H 0 1 N N N N N N -22.353 -34.858 139.829 1.399 -1.693 0.775 H22 A1MBE 66 A1MBE H23 H23 H 0 1 N N N N N N -22.401 -32.503 139.868 2.362 -3.931 -0.173 H23 A1MBE 67 A1MBE H24 H24 H 0 1 N N N N N N -23.601 -33.029 141.097 2.473 -3.058 -1.719 H24 A1MBE 68 # 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 A1MBE O3 P1 DOUB N N 1 A1MBE O11 P1 SING N N 2 A1MBE P1 S1 SING N N 3 A1MBE P1 O4 SING N N 4 A1MBE S1 C15 SING N N 5 A1MBE C15 C1 SING N N 6 A1MBE O1 C1 SING N N 7 A1MBE O1 C4 SING N N 8 A1MBE C1 C2 SING N N 9 A1MBE O4 C16 SING N N 10 A1MBE C13 N8 DOUB Y N 11 A1MBE C13 N9 SING Y N 12 A1MBE C4 N9 SING N N 13 A1MBE C4 C3 SING N N 14 A1MBE N8 C10 SING Y N 15 A1MBE N9 C9 SING Y N 16 A1MBE N10 C12 SING N N 17 A1MBE C10 C9 SING Y N 18 A1MBE C10 C12 DOUB Y N 19 A1MBE C9 N4 DOUB Y N 20 A1MBE C12 N1 SING Y N 21 A1MBE N1 C7 DOUB Y N 22 A1MBE N4 C7 SING Y N 23 A1MBE O5 C17 SING N N 24 A1MBE C16 C17 SING N N 25 A1MBE C16 C20 SING N N 26 A1MBE C17 C18 SING N N 27 A1MBE C2 C3 SING N N 28 A1MBE C2 O7 SING N N 29 A1MBE C8 N5 SING Y N 30 A1MBE C8 N6 DOUB Y N 31 A1MBE N5 C11 DOUB Y N 32 A1MBE C3 O2 SING N N 33 A1MBE N6 C6 SING Y N 34 A1MBE O7 P2 SING N N 35 A1MBE C11 N2 SING Y N 36 A1MBE C11 C5 SING Y N 37 A1MBE C20 N2 SING N N 38 A1MBE C20 O10 SING N N 39 A1MBE C6 C5 DOUB Y N 40 A1MBE C6 N7 SING N N 41 A1MBE N2 C14 SING Y N 42 A1MBE O6 P2 SING N N 43 A1MBE O6 C19 SING N N 44 A1MBE C5 N3 SING Y N 45 A1MBE C18 O10 SING N N 46 A1MBE C18 C19 SING N N 47 A1MBE C14 N3 DOUB Y N 48 A1MBE P2 O9 DOUB N N 49 A1MBE P2 O8 SING N N 50 A1MBE C4 H1 SING N N 51 A1MBE C7 H2 SING N N 52 A1MBE C8 H3 SING N N 53 A1MBE C13 H4 SING N N 54 A1MBE C15 H5 SING N N 55 A1MBE C15 H6 SING N N 56 A1MBE C17 H7 SING N N 57 A1MBE C20 H8 SING N N 58 A1MBE C1 H9 SING N N 59 A1MBE C2 H10 SING N N 60 A1MBE O2 H11 SING N N 61 A1MBE C3 H12 SING N N 62 A1MBE O5 H13 SING N N 63 A1MBE N7 H14 SING N N 64 A1MBE N7 H15 SING N N 65 A1MBE O8 H16 SING N N 66 A1MBE N10 H17 SING N N 67 A1MBE N10 H18 SING N N 68 A1MBE O11 H19 SING N N 69 A1MBE C14 H20 SING N N 70 A1MBE C16 H21 SING N N 71 A1MBE C18 H22 SING N N 72 A1MBE C19 H23 SING N N 73 A1MBE C19 H24 SING N N 74 # 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 A1MBE InChI InChI 1.06 "InChI=1S/C20H24N10O11P2S/c21-15-9-17(25-3-23-15)29(5-27-9)19-12(32)13-8(39-19)2-44-43(35,36)41-14-11(31)7(1-37-42(33,34)40-13)38-20(14)30-6-28-10-16(22)24-4-26-18(10)30/h3-8,11-14,19-20,31-32H,1-2H2,(H,33,34)(H,35,36)(H2,21,23,25)(H2,22,24,26)/t7-,8-,11-,12-,13-,14-,19-,20-/m1/s1" A1MBE InChIKey InChI 1.06 FKYKADUIHLPICL-XPWFQUROSA-N A1MBE SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@@H]4CS[P](O)(=O)O[C@@H]5[C@H](O)[C@@H](CO[P](O)(=O)O[C@H]4[C@H]3O)O[C@H]5n6cnc7c(N)ncnc67" A1MBE SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH]4CS[P](O)(=O)O[CH]5[CH](O)[CH](CO[P](O)(=O)O[CH]4[CH]3O)O[CH]5n6cnc7c(N)ncnc67" A1MBE SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@H]4[C@H](O3)CSP(=O)(O[C@@H]5[C@@H]([C@@H](COP(=O)(O4)O)O[C@H]5n6cnc7c6ncnc7N)O)O)O)N" A1MBE SMILES "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C4C(O3)CSP(=O)(OC5C(C(COP(=O)(O4)O)OC5n6cnc7c6ncnc7N)O)O)O)N" # _pdbx_chem_comp_identifier.comp_id A1MBE _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 "(1~{R},6~{S},8~{R},9~{R},10~{S},15~{R},17~{R},18~{R})-8,17-bis(6-aminopurin-9-yl)-3,12-bis(oxidanyl)-3,12-bis(oxidanylidene)-2,7,11,13,16-pentaoxa-4-thia-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecane-9,18-diol" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1MBE "Create component" 2025-08-19 PDBJ A1MBE "Initial release" 2026-08-26 RCSB #