data_C5X
#

_chem_comp.id                                   C5X
_chem_comp.name                                 "3-[(2R)-oxiran-2-yl]propyl beta-D-xylopyranoside"
_chem_comp.type                                 D-saccharide
_chem_comp.pdbx_type                            ATOMS
_chem_comp.formula                              "C10 H18 O6"
_chem_comp.mon_nstd_parent_comp_id              XYP
_chem_comp.pdbx_synonyms                        
;4,5-EPOXYPENTYL-BETA-D-XYLOSIDE; 3-[(2R)-oxiran-2-yl]propyl beta-D-xyloside; 3-[(2R)-oxiran-2-yl]propyl D-xyloside;
3-[(2R)-oxiran-2-yl]propyl xyloside
;

_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    1999-07-08
_chem_comp.pdbx_modified_date                   2020-07-17
_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                       234.246
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    C5X
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  N
_chem_comp.pdbx_ideal_coordinates_details       ?
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       1RED
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 EBI
#   #
loop_
_pdbx_chem_comp_synonyms.ordinal
_pdbx_chem_comp_synonyms.comp_id
_pdbx_chem_comp_synonyms.name
_pdbx_chem_comp_synonyms.provenance
_pdbx_chem_comp_synonyms.type
1  C5X  "4,5-EPOXYPENTYL-BETA-D-XYLOSIDE"             PDB  ?  
2  C5X  "3-[(2R)-oxiran-2-yl]propyl beta-D-xyloside"  PDB  ?  
3  C5X  "3-[(2R)-oxiran-2-yl]propyl D-xyloside"       PDB  ?  
4  C5X  "3-[(2R)-oxiran-2-yl]propyl xyloside"         PDB  ?  
#   #
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
C5X  C1      C1      C  0  1  N  N  R  82.258  22.825  10.584  -0.150   0.151   0.944  C1      C5X   1  
C5X  C2      C2      C  0  1  N  N  R  81.868  23.979  11.515  -1.057  -0.244   2.111  C2      C5X   2  
C5X  C3      C3      C  0  1  N  N  S  83.094  24.270  12.384  -0.447   0.274   3.419  C3      C5X   3  
C5X  C4      C4      C  0  1  N  N  R  83.521  23.013  13.157   0.999  -0.223   3.516  C4      C5X   4  
C5X  C5      C5      C  0  1  N  N  N  83.694  21.816  12.210   1.750   0.170   2.242  C5      C5X   5  
C5X  O1      O1      O  0  1  N  N  N  81.238  22.543   9.645  -0.728  -0.303  -0.280  O1      C5X   6  
C5X  O2      O2      O  0  1  N  N  N  81.498  25.147  10.806  -2.353   0.328   1.926  O2      C5X   7  
C5X  O3      O3      O  0  1  N  N  N  82.835  25.298  13.304  -1.204  -0.214   4.528  O3      C5X   8  
C5X  O4      O4      O  0  1  N  N  N  84.759  23.270  13.809   1.634   0.371   4.649  O4      C5X   9  
C5X  O5      O5      O  0  1  N  N  N  82.543  21.677  11.373   1.136  -0.441   1.110  O5      C5X  10  
C5X  "C1'"   "C1'"   C  0  1  N  N  N  81.497  21.470   8.706   0.154   0.099  -1.329  "C1'"   C5X  11  
C5X  "C2'"   "C2'"   C  0  1  N  N  N  80.572  21.585   7.471  -0.409  -0.359  -2.675  "C2'"   C5X  12  
C5X  "C3'"   "C3'"   C  0  1  N  N  N  79.161  21.025   7.723   0.536   0.071  -3.798  "C3'"   C5X  13  
C5X  "C4'"   "C4'"   C  0  1  N  N  R  78.474  21.685   8.934  -0.027  -0.387  -5.144  "C4'"   C5X  14  
C5X  "C5'"   "C5'"   C  0  1  N  N  N  77.295  20.929   9.485   0.757  -0.025  -6.406  "C5'"   C5X  15  
C5X  "O'"    "O'"    O  0  1  N  N  N  78.049  22.983   8.545  -0.471   0.618  -6.057  "O'"    C5X  16  
C5X  H1      H1      H  0  1  N  N  N  83.162  23.121  10.002  -0.048   1.236   0.916  H1      C5X  17  
C5X  H2      H2      H  0  1  N  N  N  80.978  23.685  12.120  -1.141  -1.330   2.156  H2      C5X  18  
C5X  H3      H3      H  0  1  N  N  N  83.913  24.589  11.699  -0.457   1.364   3.420  H3      C5X  19  
C5X  H4      H4      H  0  1  N  N  N  82.728  22.765  13.901   1.005  -1.308   3.622  H4      C5X  20  
C5X  H51     H51     H  0  1  N  N  N  84.634  21.887  11.615   1.725   1.254   2.127  H51     C5X  21  
C5X  H52     H52     H  0  1  N  N  N  83.921  20.875  12.764   2.786  -0.160   2.315  H52     C5X  22  
C5X  HO2     HO2     H  0  1  N  Y  N  81.256  25.862  11.382  -2.696  -0.020   1.091  HO2     C5X  23  
C5X  HO3     HO3     H  0  1  N  Y  N  83.595  25.478  13.843  -0.786   0.135   5.327  HO3     C5X  24  
C5X  HO4     HO4     H  0  1  N  Y  N  85.023  22.492  14.287   2.540   0.034   4.671  HO4     C5X  25  
C5X  "H1'1"  "H1'1"  H  0  0  N  N  N  82.572  21.428   8.413   0.250   1.184  -1.326  "H1'1"  C5X  26  
C5X  "H1'2"  "H1'2"  H  0  0  N  N  N  81.415  20.469   9.190   1.134  -0.352  -1.172  "H1'2"  C5X  27  
C5X  "H2'1"  "H2'1"  H  0  0  N  N  N  80.523  22.637   7.106  -0.505  -1.445  -2.678  "H2'1"  C5X  28  
C5X  "H2'2"  "H2'2"  H  0  0  N  N  N  81.037  21.104   6.578  -1.388   0.091  -2.831  "H2'2"  C5X  29  
C5X  "H3'1"  "H3'1"  H  0  0  N  N  N  78.527  21.105   6.808   0.632   1.157  -3.795  "H3'1"  C5X  30  
C5X  "H3'2"  "H3'2"  H  0  0  N  N  N  79.182  19.915   7.828   1.516  -0.380  -3.641  "H3'2"  C5X  31  
C5X  "H4'"   "H4'"   H  0  1  N  N  N  79.227  21.704   9.755  -0.562  -1.336  -5.134  "H4'"   C5X  32  
C5X  "H5'1"  "H5'1"  H  0  0  N  N  N  76.613  20.046   9.501   1.680   0.542  -6.285  "H5'1"  C5X  33  
C5X  "H5'2"  "H5'2"  H  0  0  N  N  N  76.792  20.341  10.288   0.742  -0.733  -7.234  "H5'2"  C5X  34  
#   #
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
C5X  C1     C2      SING  N  N   1  
C5X  C1     O1      SING  N  N   2  
C5X  C1     O5      SING  N  N   3  
C5X  C1     H1      SING  N  N   4  
C5X  C2     C3      SING  N  N   5  
C5X  C2     O2      SING  N  N   6  
C5X  C2     H2      SING  N  N   7  
C5X  C3     C4      SING  N  N   8  
C5X  C3     O3      SING  N  N   9  
C5X  C3     H3      SING  N  N  10  
C5X  C4     C5      SING  N  N  11  
C5X  C4     O4      SING  N  N  12  
C5X  C4     H4      SING  N  N  13  
C5X  C5     O5      SING  N  N  14  
C5X  C5     H51     SING  N  N  15  
C5X  C5     H52     SING  N  N  16  
C5X  O1     "C1'"   SING  N  N  17  
C5X  O2     HO2     SING  N  N  18  
C5X  O3     HO3     SING  N  N  19  
C5X  O4     HO4     SING  N  N  20  
C5X  "C1'"  "C2'"   SING  N  N  21  
C5X  "C1'"  "H1'1"  SING  N  N  22  
C5X  "C1'"  "H1'2"  SING  N  N  23  
C5X  "C2'"  "C3'"   SING  N  N  24  
C5X  "C2'"  "H2'1"  SING  N  N  25  
C5X  "C2'"  "H2'2"  SING  N  N  26  
C5X  "C3'"  "C4'"   SING  N  N  27  
C5X  "C3'"  "H3'1"  SING  N  N  28  
C5X  "C3'"  "H3'2"  SING  N  N  29  
C5X  "C4'"  "C5'"   SING  N  N  30  
C5X  "C4'"  "O'"    SING  N  N  31  
C5X  "C4'"  "H4'"   SING  N  N  32  
C5X  "C5'"  "O'"    SING  N  N  33  
C5X  "C5'"  "H5'1"  SING  N  N  34  
C5X  "C5'"  "H5'2"  SING  N  N  35  
#   #
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
C5X  SMILES            ACDLabs               10.04  "O(CCCC1OC1)C2OCC(O)C(O)C2O"  
C5X  SMILES_CANONICAL  CACTVS                3.341  "O[C@@H]1CO[C@@H](OCCC[C@@H]2CO2)[C@H](O)[C@H]1O"  
C5X  SMILES            CACTVS                3.341  "O[CH]1CO[CH](OCCC[CH]2CO2)[CH](O)[CH]1O"  
C5X  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "C1[C@H](O1)CCCO[C@H]2[C@@H]([C@H]([C@@H](CO2)O)O)O"  
C5X  SMILES            "OpenEye OEToolkits"  1.5.0  "C1C(O1)CCCOC2C(C(C(CO2)O)O)O"  
C5X  InChI             InChI                 1.03   "InChI=1S/C10H18O6/c11-7-5-16-10(9(13)8(7)12)14-3-1-2-6-4-15-6/h6-13H,1-5H2/t6-,7-,8+,9-,10-/m1/s1"  
C5X  InChIKey          InChI                 1.03   DMNHSULDBMDHLY-HOTMZDKISA-N  
#   #
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
C5X  "SYSTEMATIC NAME"  ACDLabs               10.04  "3-[(2R)-oxiran-2-yl]propyl beta-D-xylopyranoside"  
C5X  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "(2R,3R,4S,5R)-2-[3-[(2R)-oxiran-2-yl]propoxy]oxane-3,4,5-triol"  
#
_pdbx_chem_comp_related.comp_id            C5X
_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  C5X  C1   XYP  C1   "Carbohydrate core"  
 2  C5X  C2   XYP  C2   "Carbohydrate core"  
 3  C5X  C3   XYP  C3   "Carbohydrate core"  
 4  C5X  C4   XYP  C4   "Carbohydrate core"  
 5  C5X  C5   XYP  C5   "Carbohydrate core"  
 6  C5X  O1   XYP  O1   "Carbohydrate core"  
 7  C5X  O2   XYP  O2   "Carbohydrate core"  
 8  C5X  O3   XYP  O3   "Carbohydrate core"  
 9  C5X  O4   XYP  O4   "Carbohydrate core"  
10  C5X  O5   XYP  O5   "Carbohydrate core"  
11  C5X  H1   XYP  H1   "Carbohydrate core"  
12  C5X  H2   XYP  H2   "Carbohydrate core"  
13  C5X  H3   XYP  H3   "Carbohydrate core"  
14  C5X  H4   XYP  H4   "Carbohydrate core"  
15  C5X  H51  XYP  H51  "Carbohydrate core"  
16  C5X  H52  XYP  H52  "Carbohydrate core"  
17  C5X  HO2  XYP  HO2  "Carbohydrate core"  
18  C5X  HO3  XYP  HO3  "Carbohydrate core"  
19  C5X  HO4  XYP  HO4  "Carbohydrate core"  
#   #
loop_
_pdbx_chem_comp_feature.comp_id
_pdbx_chem_comp_feature.type
_pdbx_chem_comp_feature.value
_pdbx_chem_comp_feature.source
_pdbx_chem_comp_feature.support
C5X  "CARBOHYDRATE ISOMER"                  D         PDB  ?  
C5X  "CARBOHYDRATE RING"                    pyranose  PDB  ?  
C5X  "CARBOHYDRATE ANOMER"                  beta      PDB  ?  
C5X  "CARBOHYDRATE PRIMARY CARBONYL GROUP"  aldose    PDB  ?  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
C5X  "Create component"          1999-07-08  EBI   
C5X  "Modify descriptor"         2011-06-04  RCSB  
C5X  "Other modification"        2020-07-03  RCSB  
C5X  "Modify parent residue"     2020-07-17  RCSB  
C5X  "Modify name"               2020-07-17  RCSB  
C5X  "Modify synonyms"           2020-07-17  RCSB  
C5X  "Modify internal type"      2020-07-17  RCSB  
C5X  "Modify linking type"       2020-07-17  RCSB  
C5X  "Modify leaving atom flag"  2020-07-17  RCSB  
##
