data_XY6
# 
_chem_comp.id                                    XY6 
_chem_comp.name                                  2,3-di-O-sulfo-beta-D-xylopyranose 
_chem_comp.type                                  "D-saccharide, beta linking" 
_chem_comp.pdbx_type                             ATOMS 
_chem_comp.formula                               "C5 H10 O11 S2" 
_chem_comp.mon_nstd_parent_comp_id               XYP 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-08-09 
_chem_comp.pdbx_modified_date                    2023-07-07 
_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                        310.256 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     ? 
_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        8E07 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
# 
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 
XY6 C1  C1  C 0 1 N N R 23.904 7.150  -20.152 1.321  -1.868 0.574  C1  XY6 1  
XY6 C2  C2  C 0 1 N N R 24.718 7.355  -18.839 0.759  -0.598 -0.069 C2  XY6 2  
XY6 C3  C3  C 0 1 N N S 23.930 8.123  -17.748 -0.768 -0.605 0.055  C3  XY6 3  
XY6 C4  C4  C 0 1 N N R 22.420 7.715  -17.682 -1.315 -1.878 -0.598 C4  XY6 4  
XY6 C5  C5  C 0 1 N N N 21.867 7.635  -19.102 -0.673 -3.099 0.065  C5  XY6 5  
XY6 O5  O1  O 0 1 N N N 22.588 6.758  -19.908 0.748  -3.014 -0.059 O5  XY6 6  
XY6 O4  O2  O 0 1 N N N 22.297 6.474  -17.041 -2.733 -1.931 -0.425 O4  XY6 7  
XY6 O2  O3  O 0 1 N N N 24.938 6.108  -18.322 1.287  0.550  0.600  O2  XY6 8  
XY6 O24 O4  O 0 1 N N N 27.221 6.424  -17.710 3.294  0.046  -0.529 O24 XY6 9  
XY6 O25 O5  O 0 1 N N N 25.747 5.898  -15.945 2.044  1.886  -1.309 O25 XY6 10 
XY6 O26 O6  O 0 1 N N N 26.323 4.245  -17.594 3.021  2.131  0.823  O26 XY6 11 
XY6 O3  O7  O 0 1 N N N 23.961 9.473  -18.081 -1.306 0.541  -0.607 O3  XY6 12 
XY6 O29 O8  O 0 1 N N N 22.705 11.535 -17.764 -3.053 2.111  -0.814 O29 XY6 13 
XY6 O30 O9  O 0 1 N N N 24.966 11.512 -17.081 -3.305 0.018  0.529  O30 XY6 14 
XY6 O31 O10 O 0 1 N N N 23.377 10.258 -15.863 -2.064 1.864  1.312  O31 XY6 15 
XY6 S23 S1  S 0 1 N N N 26.114 5.621  -17.285 2.518  1.144  -0.068 S23 XY6 16 
XY6 S28 S2  S 0 1 N N N 23.741 10.781 -17.136 -2.539 1.124  0.069  S28 XY6 17 
XY6 O1  O11 O 0 1 N Y N 23.840 8.378  -20.900 2.741  -1.895 0.413  O1  XY6 18 
XY6 H1  H1  H 0 1 N N N 24.419 6.385  -20.751 1.076  -1.878 1.636  H1  XY6 19 
XY6 H2  H2  H 0 1 N N N 25.654 7.887  -19.065 1.040  -0.567 -1.121 H2  XY6 20 
XY6 H3  H3  H 0 1 N N N 24.394 7.938  -16.768 -1.048 -0.586 1.108  H3  XY6 21 
XY6 H4  H4  H 0 1 N N N 21.873 8.493  -17.129 -1.078 -1.873 -1.662 H4  XY6 22 
XY6 H51 H5  H 0 1 N N N 21.904 8.638  -19.552 -0.945 -3.125 1.120  H51 XY6 23 
XY6 H52 H6  H 0 1 N N N 20.823 7.293  -19.055 -1.027 -4.007 -0.424 H52 XY6 24 
XY6 HO4 H7  H 0 1 N N N 22.644 6.537  -16.159 -3.148 -2.713 -0.815 HO4 XY6 25 
XY6 HO1 H8  H 0 1 N N N 24.721 8.681  -21.088 3.166  -2.675 0.796  HO1 XY6 26 
XY6 H5  H9  H 0 1 N N N 26.318 6.571  -15.593 2.755  2.306  -1.812 H5  XY6 27 
XY6 H6  H10 H 0 1 N N N 24.032 10.503 -15.220 -2.776 2.276  1.820  H6  XY6 28 
# 
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 
XY6 C1  O5  SING N N 1  
XY6 C1  C2  SING N N 2  
XY6 O5  C5  SING N N 3  
XY6 C5  C4  SING N N 4  
XY6 C2  O2  SING N N 5  
XY6 C2  C3  SING N N 6  
XY6 O2  S23 SING N N 7  
XY6 O3  C3  SING N N 8  
XY6 O3  S28 SING N N 9  
XY6 O29 S28 DOUB N N 10 
XY6 C3  C4  SING N N 11 
XY6 O24 S23 DOUB N N 12 
XY6 C4  O4  SING N N 13 
XY6 O26 S23 DOUB N N 14 
XY6 S23 O25 SING N N 15 
XY6 S28 O30 DOUB N N 16 
XY6 S28 O31 SING N N 17 
XY6 C1  O1  SING N N 18 
XY6 C1  H1  SING N N 19 
XY6 C2  H2  SING N N 20 
XY6 C3  H3  SING N N 21 
XY6 C4  H4  SING N N 22 
XY6 C5  H51 SING N N 23 
XY6 C5  H52 SING N N 24 
XY6 O4  HO4 SING N N 25 
XY6 O1  HO1 SING N N 26 
XY6 O25 H5  SING N N 27 
XY6 O31 H6  SING N N 28 
# 
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 
XY6 SMILES           ACDLabs              12.01 "OC1OCC(O)C(OS(=O)(=O)O)C1OS(=O)(=O)O"                                                                                    
XY6 InChI            InChI                1.06  "InChI=1S/C5H10O11S2/c6-2-1-14-5(7)4(16-18(11,12)13)3(2)15-17(8,9)10/h2-7H,1H2,(H,8,9,10)(H,11,12,13)/t2-,3+,4-,5-/m1/s1" 
XY6 InChIKey         InChI                1.06  PCTZUCFLPZUYKQ-KKQCNMDGSA-N                                                                                               
XY6 SMILES_CANONICAL CACTVS               3.385 "O[C@@H]1CO[C@@H](O)[C@H](O[S](O)(=O)=O)[C@H]1O[S](O)(=O)=O"                                                              
XY6 SMILES           CACTVS               3.385 "O[CH]1CO[CH](O)[CH](O[S](O)(=O)=O)[CH]1O[S](O)(=O)=O"                                                                    
XY6 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1[C@H]([C@@H]([C@H]([C@@H](O1)O)OS(=O)(=O)O)OS(=O)(=O)O)O"                                                              
XY6 SMILES           "OpenEye OEToolkits" 2.0.7 "C1C(C(C(C(O1)O)OS(=O)(=O)O)OS(=O)(=O)O)O"                                                                                
# 
loop_
_pdbx_chem_comp_identifier.comp_id 
_pdbx_chem_comp_identifier.type 
_pdbx_chem_comp_identifier.program 
_pdbx_chem_comp_identifier.program_version 
_pdbx_chem_comp_identifier.identifier 
XY6 "SYSTEMATIC NAME" ACDLabs              12.01 2,3-di-O-sulfo-beta-D-xylopyranose                                                    
XY6 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R},3~{R},4~{S},5~{R})-2,5-bis(oxidanyl)-3-sulfooxy-oxan-4-yl] hydrogen sulfate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
XY6 "Create component" 2022-08-09 RCSB 
XY6 "Initial release"  2023-07-12 RCSB 
# 
_pdbx_chem_comp_related.comp_id             XY6 
_pdbx_chem_comp_related.related_comp_id     XYP 
_pdbx_chem_comp_related.relationship_type   "Carbohydrate core" 
_pdbx_chem_comp_related.details             ? 
# 
loop_
_pdbx_chem_comp_atom_related.ordinal 
_pdbx_chem_comp_atom_related.comp_id 
_pdbx_chem_comp_atom_related.atom_id 
_pdbx_chem_comp_atom_related.related_comp_id 
_pdbx_chem_comp_atom_related.related_atom_id 
_pdbx_chem_comp_atom_related.related_type 
1  XY6 C1  XYP C1  "Carbohydrate core" 
2  XY6 C2  XYP C2  "Carbohydrate core" 
3  XY6 C3  XYP C3  "Carbohydrate core" 
4  XY6 C4  XYP C4  "Carbohydrate core" 
5  XY6 C5  XYP C5  "Carbohydrate core" 
6  XY6 O5  XYP O5  "Carbohydrate core" 
7  XY6 O4  XYP O4  "Carbohydrate core" 
8  XY6 O2  XYP O2  "Carbohydrate core" 
9  XY6 O3  XYP O3  "Carbohydrate core" 
10 XY6 O1  XYP O1  "Carbohydrate core" 
11 XY6 H1  XYP H1  "Carbohydrate core" 
12 XY6 H2  XYP H2  "Carbohydrate core" 
13 XY6 H3  XYP H3  "Carbohydrate core" 
14 XY6 H4  XYP H4  "Carbohydrate core" 
15 XY6 H51 XYP H51 "Carbohydrate core" 
16 XY6 H52 XYP H52 "Carbohydrate core" 
17 XY6 HO4 XYP HO4 "Carbohydrate core" 
18 XY6 HO1 XYP HO1 "Carbohydrate core" 
# 
