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 
# 
