data_X3B
# 
_chem_comp.id                                    X3B 
_chem_comp.name                                  2-methylidene-1,3-dioxane-4,4-diol 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C5 H8 O4" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-05-31 
_chem_comp.pdbx_modified_date                    2023-10-20 
_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                        132.115 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     X3B 
_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        8P7H 
_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.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 
X3B C02 C1 C 0 1 N N N 18.873 -2.486 -3.767 -1.037 0.127  0.018  C02 X3B 1  
X3B C04 C2 C 0 1 N N N 20.055 -3.211 -1.747 1.291  0.488  0.224  C04 X3B 2  
X3B C06 C3 C 0 1 N N N 19.153 -0.995 -1.926 0.615  -1.714 -0.308 C06 X3B 3  
X3B C07 C4 C 0 1 N N N 19.189 -1.131 -3.362 -0.769 -1.364 0.252  C07 X3B 4  
X3B C08 C5 C 0 1 N N N 20.922 -4.143 -1.383 2.194  1.370  -0.182 C08 X3B 5  
X3B O01 O1 O 0 1 N N N 17.558 -2.524 -4.252 -1.110 0.387  -1.385 O01 X3B 6  
X3B O03 O2 O 0 1 N N N 18.957 -3.412 -2.708 0.039  0.883  0.592  O03 X3B 7  
X3B O05 O3 O 0 1 N N N 20.053 -1.822 -1.264 1.585  -0.842 0.286  O05 X3B 8  
X3B O09 O4 O 0 1 N N N 19.749 -2.871 -4.801 -2.268 0.497  0.641  O09 X3B 9  
X3B H1  H1 H 0 1 N N N 19.387 0.049  -1.670 0.856  -2.749 -0.066 H1  X3B 10 
X3B H2  H2 H 0 1 N N N 18.138 -1.238 -1.579 0.618  -1.582 -1.390 H2  X3B 11 
X3B H3  H3 H 0 1 N N N 20.196 -0.874 -3.722 -0.795 -1.576 1.320  H3  X3B 12 
X3B H4  H4 H 0 1 N N N 18.455 -0.443 -3.806 -1.529 -1.956 -0.258 H4  X3B 13 
X3B H5  H5 H 0 1 N N N 20.853 -5.137 -1.799 3.181  1.038  -0.470 H5  X3B 14 
X3B H6  H6 H 0 1 N N N 21.699 -3.909 -0.670 1.943  2.419  -0.225 H6  X3B 15 
X3B H7  H7 H 0 1 N N N 16.958 -2.266 -3.562 -1.277 1.314  -1.606 H7  X3B 16 
X3B H8  H8 H 0 1 N N N 20.644 -2.849 -4.483 -2.500 1.429  0.533  H8  X3B 17 
# 
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 
X3B O09 C02 SING N N 1  
X3B O01 C02 SING N N 2  
X3B C02 C07 SING N N 3  
X3B C02 O03 SING N N 4  
X3B C07 C06 SING N N 5  
X3B O03 C04 SING N N 6  
X3B C06 O05 SING N N 7  
X3B C04 C08 DOUB N N 8  
X3B C04 O05 SING N N 9  
X3B C06 H1  SING N N 10 
X3B C06 H2  SING N N 11 
X3B C07 H3  SING N N 12 
X3B C07 H4  SING N N 13 
X3B C08 H5  SING N N 14 
X3B C08 H6  SING N N 15 
X3B O01 H7  SING N N 16 
X3B O09 H8  SING N N 17 
# 
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 
X3B InChI            InChI                1.06  "InChI=1S/C5H8O4/c1-4-8-3-2-5(6,7)9-4/h6-7H,1-3H2" 
X3B InChIKey         InChI                1.06  IMDAPZFNKPSNIF-UHFFFAOYSA-N                        
X3B SMILES_CANONICAL CACTVS               3.385 "OC1(O)CCOC(=C)O1"                                 
X3B SMILES           CACTVS               3.385 "OC1(O)CCOC(=C)O1"                                 
X3B SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C=C1OCCC(O1)(O)O"                                 
X3B SMILES           "OpenEye OEToolkits" 2.0.7 "C=C1OCCC(O1)(O)O"                                 
# 
_pdbx_chem_comp_identifier.comp_id           X3B 
_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-methylidene-1,3-dioxane-4,4-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 
X3B "Create component" 2023-05-31 PDBE 
X3B "Initial release"  2023-10-25 RCSB 
#