data_A1H3D # _chem_comp.id A1H3D _chem_comp.name "3-[[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanylmethyl]benzoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H19 N5 O5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-02-01 _chem_comp.pdbx_modified_date 2024-02-09 _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 417.439 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1H3D _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 8RVA _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_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 A1H3D C1 C1 C 0 1 N N S N N N 53.979 -66.898 -29.538 2.764 2.100 -0.493 C1 A1H3D 1 A1H3D C11 C2 C 0 1 Y N N N N N 51.246 -64.697 -28.954 4.640 -0.437 0.512 C11 A1H3D 2 A1H3D C12 C3 C 0 1 Y N N N N N 50.448 -64.064 -29.895 5.191 -1.556 -0.134 C12 A1H3D 3 A1H3D C14 C4 C 0 1 Y N N N N N 52.408 -64.496 -30.783 3.229 -1.216 -0.993 C14 A1H3D 4 A1H3D C16 C5 C 0 1 Y N N N N N 49.505 -64.581 -27.402 6.546 -0.255 1.783 C16 A1H3D 5 A1H3D C18 C6 C 0 1 Y N N N N N 49.148 -63.697 -29.542 6.474 -1.981 0.252 C18 A1H3D 6 A1H3D C2 C7 C 0 1 N N R N N N 55.420 -67.075 -29.093 1.374 2.686 -0.828 C2 A1H3D 7 A1H3D C20 C8 C 0 1 N N N N N N 58.383 -65.478 -27.293 -3.419 0.374 -1.475 C20 A1H3D 8 A1H3D C21 C9 C 0 1 Y N N N N N 59.375 -66.290 -26.544 -4.524 -0.493 -0.929 C21 A1H3D 9 A1H3D C22 C10 C 0 1 Y N N N N N 59.928 -67.461 -27.038 -4.526 -1.852 -1.185 C22 A1H3D 10 A1H3D C23 C11 C 0 1 Y N N N N N 60.848 -68.149 -26.255 -5.536 -2.655 -0.687 C23 A1H3D 11 A1H3D C24 C12 C 0 1 Y N N N N N 61.207 -67.680 -24.995 -6.550 -2.104 0.069 C24 A1H3D 12 A1H3D C25 C13 C 0 1 Y N N N N N 60.627 -66.497 -24.574 -6.555 -0.733 0.332 C25 A1H3D 13 A1H3D C26 C14 C 0 1 Y N N N N N 59.714 -65.812 -25.320 -5.528 0.071 -0.169 C26 A1H3D 14 A1H3D C27 C15 C 0 1 N N N N N N 60.912 -65.848 -23.295 -7.637 -0.136 1.140 C27 A1H3D 15 A1H3D C3 C16 C 0 1 N N S N N N 55.871 -65.678 -28.667 0.382 1.679 -0.204 C3 A1H3D 16 A1H3D C5 C17 C 0 1 N N R N N N 53.558 -65.623 -28.828 2.447 0.809 0.294 C5 A1H3D 17 A1H3D C9 C18 C 0 1 N N N N N N 57.009 -65.184 -29.556 -0.846 1.516 -1.101 C9 A1H3D 18 A1H3D N13 N1 N 0 1 Y N N N N N 51.188 -63.948 -31.023 4.279 -1.984 -1.040 N13 A1H3D 19 A1H3D N15 N2 N 0 1 Y N N N N N 50.759 -64.942 -27.714 5.348 0.179 1.453 N15 A1H3D 20 A1H3D N17 N3 N 0 1 Y N N N N N 48.703 -63.969 -28.290 7.103 -1.304 1.207 N17 A1H3D 21 A1H3D N19 N4 N 0 1 N N N N N N 48.325 -63.077 -30.426 7.067 -3.077 -0.348 N19 A1H3D 22 A1H3D N8 N5 N 0 1 Y N N N N N 52.434 -64.948 -29.520 3.403 -0.246 -0.051 N8 A1H3D 23 A1H3D O28 O1 O 0 1 N N N N N N 60.254 -64.813 -23.069 -8.623 -0.914 1.626 O28 A1H3D 24 A1H3D O29 O2 O 0 1 N N N N N N 61.752 -66.353 -22.539 -7.638 1.058 1.367 O29 A1H3D 25 A1H3D O4 O3 O 0 1 N N N N N N 54.737 -64.814 -28.801 1.116 0.438 -0.125 O4 A1H3D 26 A1H3D O6 O4 O 0 1 N N N N N N 55.498 -67.992 -27.991 1.219 3.977 -0.238 O6 A1H3D 27 A1H3D O7 O5 O 0 1 N N N N N N 53.163 -68.017 -29.150 3.512 3.010 0.316 O7 A1H3D 28 A1H3D S10 S1 S 0 1 N N N N N N 58.444 -65.994 -28.950 -2.058 0.447 -0.278 S10 A1H3D 29 A1H3D H1 H1 H 0 1 N N N N N N 53.943 -66.746 -30.627 3.310 1.866 -1.407 H1 A1H3D 30 A1H3D H4 H2 H 0 1 N N N N N N 53.221 -64.557 -31.491 2.350 -1.330 -1.609 H4 A1H3D 31 A1H3D H16 H4 H 0 1 N N N N N N 49.130 -64.788 -26.411 7.093 0.266 2.556 H16 A1H3D 32 A1H3D H2 H5 H 0 1 N N N N N N 56.032 -67.421 -29.939 1.233 2.741 -1.908 H2 A1H3D 33 A1H3D H202 H6 H 0 0 N N N N N N 57.375 -65.642 -26.884 -3.056 -0.048 -2.412 H202 A1H3D 34 A1H3D H201 H7 H 0 0 N N N N N N 58.638 -64.410 -27.221 -3.800 1.380 -1.654 H201 A1H3D 35 A1H3D H22 H8 H 0 1 N N N N N N 59.649 -67.832 -28.013 -3.734 -2.289 -1.776 H22 A1H3D 36 A1H3D H23 H9 H 0 1 N N N N N N 61.290 -69.060 -26.630 -5.532 -3.716 -0.891 H23 A1H3D 37 A1H3D H24 H10 H 0 1 N N N N N N 61.908 -68.216 -24.373 -7.339 -2.732 0.457 H24 A1H3D 38 A1H3D H26 H11 H 0 1 N N N N N N 59.268 -64.904 -24.943 -5.523 1.131 0.034 H26 A1H3D 39 A1H3D H3 H12 H 0 1 N N N N N N 56.213 -65.710 -27.622 0.083 2.009 0.791 H3 A1H3D 40 A1H3D H5 H13 H 0 1 N N N N N N 53.252 -65.875 -27.802 2.467 1.004 1.366 H5 A1H3D 41 A1H3D H92 H14 H 0 1 N N N N N N 57.118 -64.092 -29.474 -1.292 2.493 -1.289 H92 A1H3D 42 A1H3D H91 H15 H 0 1 N N N N N N 56.826 -65.456 -30.606 -0.548 1.065 -2.047 H91 A1H3D 43 A1H3D HN19 H17 H 0 0 N N N N N N 47.443 -62.898 -29.991 6.597 -3.563 -1.044 HN19 A1H3D 44 A1H3D H7 H18 H 0 1 N N N N N N 48.736 -62.212 -30.714 7.953 -3.361 -0.072 H7 A1H3D 45 A1H3D H8 H19 H 0 1 N N N N N N 60.495 -64.463 -22.219 -9.309 -0.479 2.150 H8 A1H3D 46 A1H3D HO6 H20 H 0 1 N N N N N N 55.214 -68.853 -28.274 1.858 4.633 -0.552 HO6 A1H3D 47 A1H3D HO7 H21 H 0 1 N N N N N N 52.270 -67.875 -29.443 3.738 3.838 -0.129 HO7 A1H3D 48 # 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 A1H3D O29 C27 DOUB N N 1 A1H3D C27 O28 SING N N 2 A1H3D C25 C27 SING N N 3 A1H3D C25 C24 DOUB Y N 4 A1H3D C26 C25 SING Y N 5 A1H3D C24 C23 SING Y N 6 A1H3D C23 C22 DOUB Y N 7 A1H3D C22 C21 SING Y N 8 A1H3D C21 C26 DOUB Y N 9 A1H3D C20 C21 SING N N 10 A1H3D S10 C20 SING N N 11 A1H3D C9 S10 SING N N 12 A1H3D C3 C9 SING N N 13 A1H3D C3 C2 SING N N 14 A1H3D O4 C3 SING N N 15 A1H3D O6 C2 SING N N 16 A1H3D C2 C1 SING N N 17 A1H3D C5 O4 SING N N 18 A1H3D C1 C5 SING N N 19 A1H3D N8 C5 SING N N 20 A1H3D O7 C1 SING N N 21 A1H3D N8 C14 SING Y N 22 A1H3D C11 N8 SING Y N 23 A1H3D C14 N13 DOUB Y N 24 A1H3D N13 C12 SING Y N 25 A1H3D C11 N15 DOUB Y N 26 A1H3D C12 C11 SING Y N 27 A1H3D N15 C16 SING Y N 28 A1H3D C16 N17 DOUB Y N 29 A1H3D N17 C18 SING Y N 30 A1H3D C18 C12 DOUB Y N 31 A1H3D N19 C18 SING N N 32 A1H3D C1 H1 SING N N 33 A1H3D C14 H4 SING N N 34 A1H3D C16 H16 SING N N 35 A1H3D C2 H2 SING N N 36 A1H3D C20 H202 SING N N 37 A1H3D C20 H201 SING N N 38 A1H3D C22 H22 SING N N 39 A1H3D C23 H23 SING N N 40 A1H3D C24 H24 SING N N 41 A1H3D C26 H26 SING N N 42 A1H3D C3 H3 SING N N 43 A1H3D C5 H5 SING N N 44 A1H3D C9 H92 SING N N 45 A1H3D C9 H91 SING N N 46 A1H3D N19 HN19 SING N N 47 A1H3D N19 H7 SING N N 48 A1H3D O28 H8 SING N N 49 A1H3D O6 HO6 SING N N 50 A1H3D O7 HO7 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 A1H3D InChI InChI 1.06 "InChI=1S/C18H19N5O5S/c19-15-12-16(21-7-20-15)23(8-22-12)17-14(25)13(24)11(28-17)6-29-5-9-2-1-3-10(4-9)18(26)27/h1-4,7-8,11,13-14,17,24-25H,5-6H2,(H,26,27)(H2,19,20,21)" A1H3D InChIKey InChI 1.06 FRBGIZZDIAVFAN-UHFFFAOYSA-N A1H3D SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CSCc4cccc(c4)C(O)=O)[C@H](O)[C@@H]3O" A1H3D SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CSCc4cccc(c4)C(O)=O)[CH](O)[CH]3O" A1H3D SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(cc(c1)C(=O)O)CSC[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O" A1H3D SMILES "OpenEye OEToolkits" 2.0.7 "c1cc(cc(c1)C(=O)O)CSCC2C(C(C(O2)n3cnc4c3ncnc4N)O)O" # _pdbx_chem_comp_identifier.comp_id A1H3D _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 "3-[[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanylmethyl]benzoic 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 A1H3D "Create component" 2024-02-01 PDBE A1H3D "Initial release" 2024-02-14 RCSB #