data_XQ8
# 
_chem_comp.id                                    XQ8 
_chem_comp.name                                  "Geniposidic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C16 H22 O10" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-11-08 
_chem_comp.pdbx_modified_date                    2024-10-25 
_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                        374.340 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     XQ8 
_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        8WWQ 
_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 
XQ8 C   C1  C 0 1 N N N N N N 17.531 -3.574 -3.398  4.610  -1.798 -0.012 C   XQ8 1  
XQ8 O9  O1  O 0 1 N N N N N N 16.549 -4.311 -3.419  4.666  -3.005 -0.153 O9  XQ8 2  
XQ8 O   O2  O 0 1 N N N N N N 17.672 -2.581 -2.535  5.733  -1.056 -0.097 O   XQ8 3  
XQ8 C1  C2  C 0 1 N N N N N N 18.648 -3.742 -4.368  3.365  -1.172 0.236  C1  XQ8 4  
XQ8 C11 C3  C 0 1 N N S N N N 18.630 -4.881 -5.363  3.341  0.308  0.396  C11 XQ8 5  
XQ8 C12 C4  C 0 1 N N N N N N 17.659 -4.857 -6.563  3.565  1.015  -0.957 C12 XQ8 6  
XQ8 C13 C5  C 0 1 N N N N N N 18.369 -5.720 -7.572  2.748  2.284  -0.850 C13 XQ8 7  
XQ8 C14 C6  C 0 1 N N N N N N 19.655 -5.859 -7.300  1.876  2.199  0.120  C14 XQ8 8  
XQ8 C15 C7  C 0 1 N N N N N N 20.682 -6.656 -8.055  0.909  3.290  0.500  C15 XQ8 9  
XQ8 O8  O3  O 0 1 N N N N N N 20.141 -7.592 -8.955  1.099  4.416  -0.361 O8  XQ8 10 
XQ8 C10 C8  C 0 1 N N S N N N 20.009 -5.050 -6.073  1.974  0.850  0.829  C10 XQ8 11 
XQ8 C3  C9  C 0 1 N N S N N N 20.531 -3.669 -6.412  0.829  -0.031 0.361  C3  XQ8 12 
XQ8 O1  O4  O 0 1 N N N N N N 20.648 -2.796 -5.270  1.068  -1.431 0.582  O1  XQ8 13 
XQ8 C2  C10 C 0 1 N N N N N N 19.650 -2.860 -4.361  2.275  -1.941 0.308  C2  XQ8 14 
XQ8 O2  O5  O 0 1 N N N N N N 21.775 -3.735 -7.086  -0.357 0.347  1.063  O2  XQ8 15 
XQ8 C4  C11 C 0 1 N N S N N N 22.228 -2.488 -7.570  -1.533 -0.338 0.626  C4  XQ8 16 
XQ8 C9  C12 C 0 1 N N R N N N 23.694 -2.641 -7.971  -2.712 0.051  1.522  C9  XQ8 17 
XQ8 O7  O6  O 0 1 N N N N N N 24.477 -3.059 -6.854  -2.449 -0.363 2.864  O7  XQ8 18 
XQ8 C8  C13 C 0 1 N N S N N N 24.213 -1.321 -8.521  -3.981 -0.639 1.011  C8  XQ8 19 
XQ8 O6  O7  O 0 1 N N N N N N 25.544 -1.509 -9.003  -5.100 -0.226 1.798  O6  XQ8 20 
XQ8 C7  C14 C 0 1 N N S N N N 23.306 -0.818 -9.640  -4.208 -0.247 -0.452 C7  XQ8 21 
XQ8 O5  O8  O 0 1 N N N N N N 23.688 0.481  -10.063 -5.350 -0.941 -0.960 O5  XQ8 22 
XQ8 C5  C15 C 0 1 N N R N N N 21.850 -0.766 -9.171  -2.972 -0.624 -1.272 C5  XQ8 23 
XQ8 O3  O9  O 0 1 N N N N N N 21.459 -2.054 -8.684  -1.823 0.027  -0.725 O3  XQ8 24 
XQ8 C6  C16 C 0 1 N N N N N N 20.874 -0.383 -10.267 -3.167 -0.182 -2.723 C6  XQ8 25 
XQ8 O4  O10 O 0 1 N N N N N N 21.140 -1.033 -11.510 -2.065 -0.636 -3.512 O4  XQ8 26 
XQ8 H8  H1  H 0 1 N N N N N N 16.913 -2.546 -1.965  6.532  -1.571 -0.272 H8  XQ8 27 
XQ8 H7  H2  H 0 1 N N N N N N 18.437 -5.809 -4.805  4.106  0.616  1.109  H7  XQ8 28 
XQ8 H17 H3  H 0 1 N N N N N N 16.682 -5.283 -6.292  4.621  1.252  -1.094 H17 XQ8 29 
XQ8 H16 H4  H 0 1 N N N N N N 17.520 -3.834 -6.942  3.205  0.394  -1.777 H16 XQ8 30 
XQ8 H18 H5  H 0 1 N N N N N N 17.882 -6.174 -8.422  2.869  3.146  -1.490 H18 XQ8 31 
XQ8 H19 H6  H 0 1 N N N N N N 21.312 -5.956 -8.623  -0.112 2.923  0.397  H19 XQ8 32 
XQ8 H20 H7  H 0 1 N N N N N N 21.302 -7.198 -7.326  1.085  3.589  1.533  H20 XQ8 33 
XQ8 H21 H8  H 0 1 N N N N N N 20.846 -8.055 -9.393  0.508  5.158  -0.173 H21 XQ8 34 
XQ8 H6  H9  H 0 1 N N N N N N 20.713 -5.594 -5.426  1.945  0.977  1.911  H6  XQ8 35 
XQ8 H   H10 H 0 1 N N N N N N 19.800 -3.217 -7.099  0.673  0.134  -0.705 H   XQ8 36 
XQ8 H9  H11 H 0 1 N N N N N N 19.664 -2.135 -3.560  2.376  -3.007 0.170  H9  XQ8 37 
XQ8 H1  H12 H 0 1 N N N N N N 22.170 -1.737 -6.768  -1.371 -1.414 0.685  H1  XQ8 38 
XQ8 H5  H13 H 0 1 N N N N N N 23.756 -3.396 -8.768  -2.850 1.132  1.495  H5  XQ8 39 
XQ8 H15 H14 H 0 1 N N N N N N 24.141 -3.883 -6.522  -1.656 0.033  3.250  H15 XQ8 40 
XQ8 H4  H15 H 0 1 N N N N N N 24.211 -0.578 -7.709  -3.863 -1.720 1.085  H4  XQ8 41 
XQ8 H14 H16 H 0 1 N N N N N N 26.096 -1.822 -8.296  -5.019 -0.438 2.738  H14 XQ8 42 
XQ8 H3  H17 H 0 1 N N N N N N 23.373 -1.520 -10.484 -4.376 0.828  -0.519 H3  XQ8 43 
XQ8 H13 H18 H 0 1 N N N N N N 24.591 0.466  -10.358 -6.169 -0.752 -0.484 H13 XQ8 44 
XQ8 H2  H19 H 0 1 N N N N N N 21.774 -0.026 -8.361  -2.828 -1.704 -1.237 H2  XQ8 45 
XQ8 H11 H20 H 0 1 N N N N N N 19.859 -0.654 -9.941  -4.092 -0.608 -3.112 H11 XQ8 46 
XQ8 H10 H21 H 0 1 N N N N N N 20.932 0.705  -10.422 -3.221 0.906  -2.767 H10 XQ8 47 
XQ8 H12 H22 H 0 1 N N N N N N 20.500 -0.756 -12.156 -2.122 -0.391 -4.445 H12 XQ8 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 
XQ8 O   C   SING N N 1  
XQ8 C1  C   SING N N 2  
XQ8 C1  C2  DOUB N N 3  
XQ8 C2  O1  SING N N 4  
XQ8 O1  C3  SING N N 5  
XQ8 O2  C3  SING N N 6  
XQ8 C4  O2  SING N N 7  
XQ8 C4  O3  SING N N 8  
XQ8 O3  C5  SING N N 9  
XQ8 C6  C5  SING N N 10 
XQ8 O4  C6  SING N N 11 
XQ8 C5  C7  SING N N 12 
XQ8 O5  C7  SING N N 13 
XQ8 C7  C8  SING N N 14 
XQ8 O6  C8  SING N N 15 
XQ8 C8  C9  SING N N 16 
XQ8 C9  C4  SING N N 17 
XQ8 O7  C9  SING N N 18 
XQ8 C3  C10 SING N N 19 
XQ8 C10 C11 SING N N 20 
XQ8 C11 C1  SING N N 21 
XQ8 C12 C11 SING N N 22 
XQ8 C13 C12 SING N N 23 
XQ8 C14 C13 DOUB N N 24 
XQ8 C10 C14 SING N N 25 
XQ8 C15 C14 SING N N 26 
XQ8 O8  C15 SING N N 27 
XQ8 C   O9  DOUB N N 28 
XQ8 O   H8  SING N N 29 
XQ8 C11 H7  SING N N 30 
XQ8 C12 H17 SING N N 31 
XQ8 C12 H16 SING N N 32 
XQ8 C13 H18 SING N N 33 
XQ8 C15 H19 SING N N 34 
XQ8 C15 H20 SING N N 35 
XQ8 O8  H21 SING N N 36 
XQ8 C10 H6  SING N N 37 
XQ8 C3  H   SING N N 38 
XQ8 C2  H9  SING N N 39 
XQ8 C4  H1  SING N N 40 
XQ8 C9  H5  SING N N 41 
XQ8 O7  H15 SING N N 42 
XQ8 C8  H4  SING N N 43 
XQ8 O6  H14 SING N N 44 
XQ8 C7  H3  SING N N 45 
XQ8 O5  H13 SING N N 46 
XQ8 C5  H2  SING N N 47 
XQ8 C6  H11 SING N N 48 
XQ8 C6  H10 SING N N 49 
XQ8 O4  H12 SING N N 50 
# 
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 
XQ8 InChI            InChI                1.06  "InChI=1S/C16H22O10/c17-3-6-1-2-7-8(14(22)23)5-24-15(10(6)7)26-16-13(21)12(20)11(19)9(4-18)25-16/h1,5,7,9-13,15-21H,2-4H2,(H,22,23)/t7-,9-,10-,11-,12+,13-,15+,16+/m1/s1" 
XQ8 InChIKey         InChI                1.06  ZJDOESGVOWAULF-OGJQONSISA-N                                                                                                                                               
XQ8 SMILES_CANONICAL CACTVS               3.385 "OC[C@H]1O[C@@H](O[C@@H]2OC=C([C@H]3CC=C(CO)[C@@H]23)C(O)=O)[C@H](O)[C@@H](O)[C@@H]1O"                                                                                    
XQ8 SMILES           CACTVS               3.385 "OC[CH]1O[CH](O[CH]2OC=C([CH]3CC=C(CO)[CH]23)C(O)=O)[CH](O)[CH](O)[CH]1O"                                                                                                 
XQ8 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1C=C([C@@H]2[C@H]1C(=CO[C@H]2O[C@H]3[C@@H]([C@H]([C@@H]([C@H](O3)CO)O)O)O)C(=O)O)CO"                                                                                    
XQ8 SMILES           "OpenEye OEToolkits" 2.0.7 "C1C=C(C2C1C(=COC2OC3C(C(C(C(O3)CO)O)O)O)C(=O)O)CO"                                                                                                                       
# 
_pdbx_chem_comp_identifier.comp_id           XQ8 
_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~{S},4~{a}~{S},7~{a}~{S})-7-(hydroxymethyl)-1-[(2~{S},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-1,4~{a},5,7~{a}-tetrahydrocyclopenta[c]pyran-4-carboxylic 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 
XQ8 "Create component" 2023-11-08 PDBJ 
XQ8 "Initial release"  2024-10-30 RCSB 
# 
