data_XDX
#

_chem_comp.id                                   XDX
_chem_comp.name                                 "(2R)-2-(alpha-D-glucopyranosyloxy)-3-(phosphonooxy)propanoic acid"
_chem_comp.type                                 D-saccharide
_chem_comp.pdbx_type                            ATOMS
_chem_comp.formula                              "C9 H17 O12 P"
_chem_comp.mon_nstd_parent_comp_id              GLC
_chem_comp.pdbx_synonyms                        
;(2R)-2-(alpha-D-glucosyloxy)-3-(phosphonooxy)propanoic acid; (2R)-2-(D-glucosyloxy)-3-(phosphonooxy)propanoic acid;
(2R)-2-(glucosyloxy)-3-(phosphonooxy)propanoic acid
;

_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2016-05-10
_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                       348.198
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    XDX
_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       5JT0
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 RCSB
#   #
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  XDX  "(2R)-2-(alpha-D-glucosyloxy)-3-(phosphonooxy)propanoic acid"  PDB  ?  
2  XDX  "(2R)-2-(D-glucosyloxy)-3-(phosphonooxy)propanoic acid"        PDB  ?  
3  XDX  "(2R)-2-(glucosyloxy)-3-(phosphonooxy)propanoic acid"          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
XDX  OAN  OAN  O  0  1  N  N  N  1.132   -7.778   2.943  -2.911  -2.585  -0.651  OAN  XDX   1  
XDX  PAL  PAL  P  0  1  N  N  N  2.096   -7.370   1.912  -3.538  -1.112  -0.478  PAL  XDX   2  
XDX  OAO  OAO  O  0  1  N  N  N  3.362   -7.069   2.575  -4.285  -0.684  -1.838  OAO  XDX   3  
XDX  OAP  OAP  O  0  1  N  N  N  1.549   -6.004   1.693  -4.511  -1.118   0.638  OAP  XDX   4  
XDX  OAM  OAM  O  0  1  N  N  N  2.278   -8.407   0.744  -2.361  -0.062  -0.158  OAM  XDX   5  
XDX  CAQ  CAQ  C  0  1  N  N  N  3.417   -8.382  -0.101  -1.580  -0.108   1.038  CAQ  XDX   6  
XDX  CAR  CAR  C  0  1  N  N  R  3.193   -8.805  -1.546  -0.556   1.028   1.022  CAR  XDX   7  
XDX  CAS  CAS  C  0  1  N  N  N  1.818   -8.257  -1.985  -1.265   2.342   0.818  CAS  XDX   8  
XDX  OAV  OAV  O  0  1  N  N  N  1.458   -7.127  -1.450  -2.115   2.798   1.752  OAV  XDX   9  
XDX  OAU  OAU  O  0  1  N  N  N  1.072   -8.901  -2.809  -1.070   2.985  -0.186  OAU  XDX  10  
XDX  O1   O1   O  0  1  N  N  N  3.326  -10.194  -1.789   0.373   0.818  -0.044  O1   XDX  11  
XDX  C1   C1   C  0  1  N  N  R  3.048  -10.762  -3.103   1.678   1.341   0.210  C1   XDX  12  
XDX  O5   O5   O  0  1  N  N  N  4.150  -10.747  -4.044   2.315   0.559   1.223  O5   XDX  13  
XDX  C5   C5   C  0  1  N  N  R  5.309  -11.632  -3.892   2.450  -0.825   0.893  C5   XDX  14  
XDX  C6   C6   C  0  1  N  N  N  6.274  -11.497  -5.032   3.116  -1.564   2.055  C6   XDX  15  
XDX  O6   O6   O  0  1  N  N  N  5.713  -10.817  -6.215   2.257  -1.530   3.197  O6   XDX  16  
XDX  C4   C4   C  0  1  N  N  S  4.787  -13.008  -3.649   3.312  -0.967  -0.364  C4   XDX  17  
XDX  O4   O4   O  0  1  N  N  N  5.928  -13.892  -3.376   3.400  -2.346  -0.730  O4   XDX  18  
XDX  C3   C3   C  0  1  N  N  S  3.777  -12.995  -2.511   2.670  -0.175  -1.507  C3   XDX  19  
XDX  O3   O3   O  0  1  N  N  N  3.468  -14.281  -2.004   3.506  -0.242  -2.664  O3   XDX  20  
XDX  C2   C2   C  0  1  N  N  R  2.532  -12.177  -2.959   2.509   1.286  -1.074  C2   XDX  21  
XDX  O2   O2   O  0  1  N  N  N  1.373  -12.294  -2.126   1.845   2.019  -2.105  O2   XDX  22  
XDX  H1A  H1   H  0  1  N  N  N  0.523   -7.067   3.107  -2.264  -2.656  -1.366  H1A  XDX  23  
XDX  H2A  H2   H  0  1  N  N  N  3.457   -6.128   2.666  -5.008  -1.274  -2.093  H2A  XDX  24  
XDX  H3A  H3   H  0  1  N  N  N  4.171   -9.055   0.333  -2.234   0.004   1.903  H3A  XDX  25  
XDX  H4A  H4   H  0  1  N  N  N  3.806   -7.353  -0.109  -1.061  -1.064   1.096  H4A  XDX  26  
XDX  H5A  H5   H  0  1  N  N  N  3.947   -8.279  -2.151  -0.020   1.048   1.971  H5A  XDX  27  
XDX  H6   H6   H  0  1  N  N  N  0.595   -6.887  -1.766  -2.546   3.645   1.577  H6   XDX  28  
XDX  H1   H7   H  0  1  N  N  N  2.231  -10.174  -3.546   1.597   2.374   0.547  H1   XDX  29  
XDX  H5   H8   H  0  1  N  N  N  5.842  -11.323  -2.981   1.464  -1.252   0.707  H5   XDX  30  
XDX  H61  H9   H  0  1  N  N  N  6.597  -12.504  -5.333   3.299  -2.600   1.769  H61  XDX  31  
XDX  H62  H10  H  0  1  N  N  N  7.144  -10.922  -4.683   4.063  -1.082   2.297  H62  XDX  32  
XDX  HO6  H11  H  0  1  N  Y  N  6.374  -10.766  -6.895   2.617  -1.980   3.973  HO6  XDX  33  
XDX  H4   H12  H  0  1  N  N  N  4.276  -13.356  -4.559   4.311  -0.578  -0.167  H4   XDX  34  
XDX  HO4  H13  H  0  1  N  Y  N  5.615  -14.775  -3.218   3.933  -2.510  -1.520  HO4  XDX  35  
XDX  H3   H14  H  0  1  N  N  N  4.239  -12.419  -1.695   1.692  -0.597  -1.739  H3   XDX  36  
XDX  HO3  H15  H  0  1  N  Y  N  2.835  -14.201  -1.300   3.159   0.240  -3.428  HO3  XDX  37  
XDX  H2   H16  H  0  1  N  N  N  2.268  -12.530  -3.967   3.492   1.721  -0.891  H2   XDX  38  
XDX  HO2  H17  H  0  1  N  Y  N  1.106  -13.204  -2.081   1.705   2.953  -1.896  HO2  XDX  39  
#   #
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
XDX  O6   C6   SING  N  N   1  
XDX  C6   C5   SING  N  N   2  
XDX  O5   C5   SING  N  N   3  
XDX  O5   C1   SING  N  N   4  
XDX  C5   C4   SING  N  N   5  
XDX  C4   O4   SING  N  N   6  
XDX  C4   C3   SING  N  N   7  
XDX  C1   C2   SING  N  N   8  
XDX  C1   O1   SING  N  N   9  
XDX  C2   C3   SING  N  N  10  
XDX  C2   O2   SING  N  N  11  
XDX  OAU  CAS  DOUB  N  N  12  
XDX  C3   O3   SING  N  N  13  
XDX  CAS  CAR  SING  N  N  14  
XDX  CAS  OAV  SING  N  N  15  
XDX  O1   CAR  SING  N  N  16  
XDX  CAR  CAQ  SING  N  N  17  
XDX  CAQ  OAM  SING  N  N  18  
XDX  OAM  PAL  SING  N  N  19  
XDX  OAP  PAL  DOUB  N  N  20  
XDX  PAL  OAO  SING  N  N  21  
XDX  PAL  OAN  SING  N  N  22  
XDX  OAN  H1A  SING  N  N  23  
XDX  OAO  H2A  SING  N  N  24  
XDX  CAQ  H3A  SING  N  N  25  
XDX  CAQ  H4A  SING  N  N  26  
XDX  CAR  H5A  SING  N  N  27  
XDX  OAV  H6   SING  N  N  28  
XDX  C1   H1   SING  N  N  29  
XDX  C5   H5   SING  N  N  30  
XDX  C6   H61  SING  N  N  31  
XDX  C6   H62  SING  N  N  32  
XDX  O6   HO6  SING  N  N  33  
XDX  C4   H4   SING  N  N  34  
XDX  O4   HO4  SING  N  N  35  
XDX  C3   H3   SING  N  N  36  
XDX  O3   HO3  SING  N  N  37  
XDX  C2   H2   SING  N  N  38  
XDX  O2   HO2  SING  N  N  39  
#   #
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
XDX  SMILES            ACDLabs               12.01  "OP(O)(=O)OCC(C(O)=O)OC1C(C(C(C(O1)CO)O)O)O"  
XDX  InChI             InChI                 1.03   "InChI=1S/C9H17O12P/c10-1-3-5(11)6(12)7(13)9(20-3)21-4(8(14)15)2-19-22(16,17)18/h3-7,9-13H,1-2H2,(H,14,15)(H2,16,17,18)/t3-,4-,5-,6+,7-,9-/m1/s1"  
XDX  InChIKey          InChI                 1.03   RJDBNSZFZDWPFL-CECBSOHTSA-N  
XDX  SMILES_CANONICAL  CACTVS                3.385  "OC[C@H]1O[C@H](O[C@H](CO[P](O)(O)=O)C(O)=O)[C@H](O)[C@@H](O)[C@@H]1O"  
XDX  SMILES            CACTVS                3.385  "OC[CH]1O[CH](O[CH](CO[P](O)(O)=O)C(O)=O)[CH](O)[CH](O)[CH]1O"  
XDX  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.4  "C([C@@H]1[C@H]([C@@H]([C@H]([C@H](O1)O[C@H](COP(=O)(O)O)C(=O)O)O)O)O)O"  
XDX  SMILES            "OpenEye OEToolkits"  2.0.4  "C(C1C(C(C(C(O1)OC(COP(=O)(O)O)C(=O)O)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
XDX  "SYSTEMATIC NAME"  ACDLabs               12.01  "(2R)-2-(alpha-D-glucopyranosyloxy)-3-(phosphonooxy)propanoic acid"  
XDX  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.4  
;(2~{R})-2-[(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-3-phosphonooxy-propanoic
 acid
;
  
#
_pdbx_chem_comp_related.comp_id            XDX
_pdbx_chem_comp_related.related_comp_id    GLC
_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  XDX  C1   GLC  C1   "Carbohydrate core"  
 2  XDX  C2   GLC  C2   "Carbohydrate core"  
 3  XDX  C3   GLC  C3   "Carbohydrate core"  
 4  XDX  C4   GLC  C4   "Carbohydrate core"  
 5  XDX  C5   GLC  C5   "Carbohydrate core"  
 6  XDX  C6   GLC  C6   "Carbohydrate core"  
 7  XDX  O1   GLC  O1   "Carbohydrate core"  
 8  XDX  O2   GLC  O2   "Carbohydrate core"  
 9  XDX  O3   GLC  O3   "Carbohydrate core"  
10  XDX  O4   GLC  O4   "Carbohydrate core"  
11  XDX  O5   GLC  O5   "Carbohydrate core"  
12  XDX  O6   GLC  O6   "Carbohydrate core"  
13  XDX  H62  GLC  H62  "Carbohydrate core"  
14  XDX  HO6  GLC  HO6  "Carbohydrate core"  
15  XDX  H4   GLC  H4   "Carbohydrate core"  
16  XDX  HO4  GLC  HO4  "Carbohydrate core"  
17  XDX  H3   GLC  H3   "Carbohydrate core"  
18  XDX  HO3  GLC  HO3  "Carbohydrate core"  
19  XDX  H2   GLC  H2   "Carbohydrate core"  
20  XDX  HO2  GLC  HO2  "Carbohydrate core"  
21  XDX  H1   GLC  H1   "Carbohydrate core"  
22  XDX  H5   GLC  H5   "Carbohydrate core"  
23  XDX  H61  GLC  H61  "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
XDX  "CARBOHYDRATE ISOMER"                  D         PDB  ?  
XDX  "CARBOHYDRATE RING"                    pyranose  PDB  ?  
XDX  "CARBOHYDRATE ANOMER"                  alpha     PDB  ?  
XDX  "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
XDX  "Create component"          2016-05-10  RCSB  
XDX  "Initial release"           2017-05-24  RCSB  
XDX  "Other modification"        2020-07-03  RCSB  
XDX  "Modify parent residue"     2020-07-17  RCSB  
XDX  "Modify synonyms"           2020-07-17  RCSB  
XDX  "Modify internal type"      2020-07-17  RCSB  
XDX  "Modify linking type"       2020-07-17  RCSB  
XDX  "Modify atom id"            2020-07-17  RCSB  
XDX  "Modify component atom id"  2020-07-17  RCSB  
XDX  "Modify leaving atom flag"  2020-07-17  RCSB  
##
