data_XOB # _chem_comp.id XOB _chem_comp.name "1-[[(3~{R})-2,3-dihydro-1,4-benzodioxin-3-yl]methyl]-3-oxidanyl-thieno[3,2-d]pyrimidine-2,4-dione" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C15 H12 N2 O5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-06-08 _chem_comp.pdbx_modified_date 2024-02-16 _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 332.331 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XOB _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 8CG9 _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_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_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 XOB C1 C1 C 0 1 Y N N N N N 0.898 18.568 20.211 5.496 0.487 -1.393 C1 XOB 1 XOB C2 C2 C 0 1 Y N N N N N 2.104 18.816 19.587 4.652 1.580 -1.456 C2 XOB 2 XOB C3 C3 C 0 1 Y N N N N N 3.283 18.765 20.309 3.403 1.526 -0.865 C3 XOB 3 XOB C4 C4 C 0 1 Y N N N N N 3.244 18.476 21.666 2.995 0.376 -0.207 C4 XOB 4 XOB C5 C5 C 0 1 Y N N N N N 2.035 18.208 22.291 3.843 -0.724 -0.146 C5 XOB 5 XOB C6 C6 C 0 1 Y N N N N N 0.858 18.274 21.564 5.094 -0.663 -0.740 C6 XOB 6 XOB O7 O1 O 0 1 N N N N N N 1.967 17.912 23.636 3.460 -1.864 0.491 O7 XOB 7 XOB C8 C7 C 0 1 N N N N N N 3.237 17.527 24.200 2.356 -1.756 1.396 C8 XOB 8 XOB C9 C8 C 0 1 N N R N N N 4.324 18.478 23.771 1.246 -0.952 0.705 C9 XOB 9 XOB O10 O2 O 0 1 N N N N N N 4.444 18.439 22.341 1.766 0.341 0.377 O10 XOB 10 XOB C11 C9 C 0 1 N N N N N N 5.715 18.120 24.316 0.052 -0.804 1.650 C11 XOB 11 XOB N12 N1 N 0 1 N N N N N N 5.867 18.208 25.783 -1.049 -0.141 0.946 N12 XOB 12 XOB C13 C10 C 0 1 Y N N N N N 6.086 19.400 26.428 -1.992 -0.910 0.251 C13 XOB 13 XOB C14 C11 C 0 1 Y N N N N N 6.182 20.752 25.850 -2.078 -2.288 0.098 C14 XOB 14 XOB C15 C12 C 0 1 Y N N N N N 6.403 21.696 26.804 -3.103 -2.723 -0.631 C15 XOB 15 XOB S16 S1 S 0 1 Y N N N N N 6.501 21.061 28.402 -4.057 -1.427 -1.191 S16 XOB 16 XOB C17 C13 C 0 1 Y N N N N N 6.242 19.442 27.812 -3.017 -0.249 -0.402 C17 XOB 17 XOB C18 C14 C 0 1 N N N N N N 6.183 18.274 28.559 -3.077 1.167 -0.346 C18 XOB 18 XOB O19 O3 O 0 1 N N N N N N 6.316 18.238 29.779 -3.973 1.765 -0.915 O19 XOB 19 XOB N20 N2 N 0 1 N N N N N N 5.968 17.105 27.876 -2.138 1.846 0.339 N20 XOB 20 XOB C21 C15 C 0 1 N N N N N N 5.809 17.049 26.511 -1.149 1.197 0.977 C21 XOB 21 XOB O22 O4 O 0 1 N N N N N N 5.621 15.987 25.939 -0.320 1.839 1.593 O22 XOB 22 XOB O23 O5 O 0 1 N N N N N N 5.900 15.916 28.579 -2.197 3.259 0.395 O23 XOB 23 XOB H1 H1 H 0 1 N N N N N N -0.019 18.603 19.641 6.469 0.531 -1.859 H1 XOB 24 XOB H2 H2 H 0 1 N N N N N N 2.127 19.050 18.533 4.968 2.477 -1.968 H2 XOB 25 XOB H3 H3 H 0 1 N N N N N N 4.228 18.949 19.820 2.746 2.382 -0.915 H3 XOB 26 XOB H4 H4 H 0 1 N N N N N N -0.089 18.097 22.051 5.754 -1.517 -0.697 H4 XOB 27 XOB H5 H5 H 0 1 N N N N N N 3.162 17.537 25.297 1.988 -2.750 1.647 H5 XOB 28 XOB H6 H6 H 0 1 N N N N N N 3.490 16.512 23.859 2.673 -1.241 2.303 H6 XOB 29 XOB H7 H7 H 0 1 N N N N N N 4.065 19.495 24.102 0.933 -1.465 -0.205 H7 XOB 30 XOB H8 H8 H 0 1 N N N N N N 5.942 17.087 24.013 -0.272 -1.789 1.984 H8 XOB 31 XOB H9 H9 H 0 1 N N N N N N 6.444 18.804 23.858 0.344 -0.205 2.513 H9 XOB 32 XOB H10 H10 H 0 1 N N N N N N 6.088 20.967 24.796 -1.359 -2.962 0.540 H10 XOB 33 XOB H11 H11 H 0 1 N N N N N N 6.507 22.747 26.580 -3.305 -3.763 -0.840 H11 XOB 34 XOB H12 H12 H 0 1 N N N N N N 6.023 16.088 29.505 -2.944 3.641 -0.087 H12 XOB 35 # 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 XOB C2 C1 DOUB Y N 1 XOB C2 C3 SING Y N 2 XOB C1 C6 SING Y N 3 XOB C3 C4 DOUB Y N 4 XOB C6 C5 DOUB Y N 5 XOB C4 C5 SING Y N 6 XOB C4 O10 SING N N 7 XOB C5 O7 SING N N 8 XOB O10 C9 SING N N 9 XOB O7 C8 SING N N 10 XOB C9 C8 SING N N 11 XOB C9 C11 SING N N 12 XOB C11 N12 SING N N 13 XOB N12 C13 SING N N 14 XOB N12 C21 SING N N 15 XOB C14 C13 SING Y N 16 XOB C14 C15 DOUB Y N 17 XOB O22 C21 DOUB N N 18 XOB C13 C17 DOUB Y N 19 XOB C21 N20 SING N N 20 XOB C15 S16 SING Y N 21 XOB C17 S16 SING Y N 22 XOB C17 C18 SING N N 23 XOB N20 C18 SING N N 24 XOB N20 O23 SING N N 25 XOB C18 O19 DOUB N N 26 XOB C1 H1 SING N N 27 XOB C2 H2 SING N N 28 XOB C3 H3 SING N N 29 XOB C6 H4 SING N N 30 XOB C8 H5 SING N N 31 XOB C8 H6 SING N N 32 XOB C9 H7 SING N N 33 XOB C11 H8 SING N N 34 XOB C11 H9 SING N N 35 XOB C14 H10 SING N N 36 XOB C15 H11 SING N N 37 XOB O23 H12 SING N N 38 # 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 XOB InChI InChI 1.06 "InChI=1S/C15H12N2O5S/c18-14-13-10(5-6-23-13)16(15(19)17(14)20)7-9-8-21-11-3-1-2-4-12(11)22-9/h1-6,9,20H,7-8H2/t9-/m1/s1" XOB InChIKey InChI 1.06 MXQGCMQXTPTJJT-SECBINFHSA-N XOB SMILES_CANONICAL CACTVS 3.385 "ON1C(=O)N(C[C@@H]2COc3ccccc3O2)c4ccsc4C1=O" XOB SMILES CACTVS 3.385 "ON1C(=O)N(C[CH]2COc3ccccc3O2)c4ccsc4C1=O" XOB SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc2c(c1)OC[C@H](O2)CN3c4ccsc4C(=O)N(C3=O)O" XOB SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc2c(c1)OCC(O2)CN3c4ccsc4C(=O)N(C3=O)O" # _pdbx_chem_comp_identifier.comp_id XOB _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-[[(3~{R})-2,3-dihydro-1,4-benzodioxin-3-yl]methyl]-3-oxidanyl-thieno[3,2-d]pyrimidine-2,4-dione" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site XOB "Create component" 2023-06-08 PDBE XOB "Initial release" 2024-02-21 RCSB #