data_M55
#

_chem_comp.id                                   M55
_chem_comp.name                                 "benzyl alpha-D-glucopyranuronate"
_chem_comp.type                                 "D-saccharide, alpha linking"
_chem_comp.pdbx_type                            ATOMS
_chem_comp.formula                              "C13 H16 O7"
_chem_comp.mon_nstd_parent_comp_id              GCU
_chem_comp.pdbx_synonyms                        "Benzyl D-glucuronoate"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2019-10-03
_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                       284.262
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    M55
_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       6T0E
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 EBI
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     M55
_pdbx_chem_comp_synonyms.name        "Benzyl D-glucuronoate"
_pdbx_chem_comp_synonyms.provenance  PDB
_pdbx_chem_comp_synonyms.type        ?
#   #
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
M55  C3   C3   C  0  1  N  N  S  -13.417  -1.119  -15.739  -2.842  -1.275   0.167  C3   M55   1  
M55  C4   C4   C  0  1  N  N  S  -14.405  -1.843  -14.820  -1.498  -0.784  -0.378  C4   M55   2  
M55  C1   C1   C  0  1  N  N  S  -13.698  -3.005  -17.350  -3.606   1.101   0.194  C1   M55   3  
M55  C01  C01  C  0  1  N  N  N  -16.129  -4.919  -12.166   2.410   1.133  -0.730  C01  M55   4  
M55  C02  C02  C  0  1  Y  N  N  -15.325  -4.405   -9.846   4.271   0.796   0.910  C02  M55   5  
M55  C03  C03  C  0  1  Y  N  N  -14.651  -4.741   -8.690   5.371   0.098   1.371  C03  M55   6  
M55  C04  C04  C  0  1  Y  N  N  -14.055  -5.975   -8.574   5.812  -1.024   0.694  C04  M55   7  
M55  C05  C05  C  0  1  Y  N  N  -14.133  -6.875   -9.623   5.153  -1.446  -0.446  C05  M55   8  
M55  C06  C06  C  0  1  Y  N  N  -14.805  -6.543  -10.776   4.053  -0.748  -0.907  C06  M55   9  
M55  C07  C07  C  0  1  Y  N  N  -15.414  -5.309  -10.881   3.609   0.371  -0.227  C07  M55  10  
M55  C2   C2   C  0  1  N  N  R  -13.687  -1.478  -17.210  -3.946  -0.313  -0.284  C2   M55  11  
M55  C5   C5   C  0  1  N  N  S  -14.387  -3.340  -15.161  -1.253   0.649   0.103  C5   M55  12  
M55  C6   C6   C  0  1  N  N  N  -15.456  -3.961  -14.266   0.040   1.160  -0.478  C6   M55  13  
M55  O6B  O01  O  0  1  N  N  N  -15.143  -4.286  -12.942   1.204   0.588  -0.131  O6B  M55  14  
M55  O1   O1   O  0  1  N  Y  N  -12.445  -3.556  -17.046  -3.567   1.125   1.622  O1   M55  15  
M55  O2   O2   O  0  1  N  N  N  -12.712  -0.881  -18.043  -5.194  -0.720   0.279  O2   M55  16  
M55  O3   O3   O  0  1  N  N  N  -13.596   0.261  -15.587  -3.114  -2.584  -0.337  O3   M55  17  
M55  O4   O4   O  0  1  N  N  N  -14.116  -1.661  -13.451  -0.451  -1.633   0.097  O4   M55  18  
M55  O5   O5   O  0  1  N  N  N  -14.700  -3.537  -16.507  -2.330   1.484  -0.324  O5   M55  19  
M55  O6A  O6B  O  0  1  N  N  N  -16.543  -4.137  -14.696   0.029   2.084  -1.256  O6A  M55  20  
M55  H3   H3   H  0  1  N  N  N  -12.391  -1.418  -15.476  -2.805  -1.304   1.256  H3   M55  21  
M55  H4   H4   H  0  1  N  N  N  -15.413  -1.459  -15.037  -1.517  -0.804  -1.468  H4   M55  22  
M55  H1   H1   H  0  1  N  N  N  -13.950  -3.238  -18.395  -4.366   1.797  -0.161  H1   M55  23  
M55  H01  H01  H  0  1  N  N  N  -16.959  -4.229  -11.954   2.508   2.184  -0.459  H01  M55  24  
M55  H02  H02  H  0  1  N  N  N  -16.516  -5.811  -12.681   2.351   1.041  -1.814  H02  M55  25  
M55  H08  H08  H  0  1  N  N  N  -15.783  -3.432   -9.939   3.927   1.673   1.439  H08  M55  26  
M55  H09  H09  H  0  1  N  N  N  -14.591  -4.034   -7.875   5.886   0.428   2.261  H09  M55  27  
M55  H10  H10  H  0  1  N  N  N  -13.529  -6.241   -7.669   6.671  -1.570   1.054  H10  M55  28  
M55  H11  H11  H  0  1  N  N  N  -13.663  -7.844   -9.535   5.497  -2.322  -0.975  H11  M55  29  
M55  H12  H12  H  0  1  N  N  N  -14.856  -7.245  -11.595   3.538  -1.078  -1.798  H12  M55  30  
M55  H2   H2   H  0  1  N  N  N  -14.686  -1.101  -17.477  -4.015  -0.323  -1.372  H2   M55  31  
M55  H5   H5   H  0  1  N  N  N  -13.403  -3.762  -14.909  -1.192   0.661   1.191  H5   M55  32  
M55  HO1  HO1  H  0  1  N  Y  N  -12.482  -4.500  -17.141  -3.357   1.992   1.995  HO1  M55  33  
M55  HO2  HO2  H  0  1  N  Y  N  -12.733   0.062  -17.931  -5.938  -0.152   0.038  HO2  M55  34  
M55  HO3  HO3  H  0  1  N  Y  N  -13.434   0.504  -14.683  -3.951  -2.957  -0.031  HO3  M55  35  
M55  HO4  HO4  H  0  1  N  Y  N  -14.756  -2.129  -12.927   0.430  -1.380  -0.211  HO4  M55  36  
#   #
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
M55  O2   C2   SING  N  N   1  
M55  C1   C2   SING  N  N   2  
M55  C1   O1   SING  N  N   3  
M55  C1   O5   SING  N  N   4  
M55  C2   C3   SING  N  N   5  
M55  O5   C5   SING  N  N   6  
M55  C3   O3   SING  N  N   7  
M55  C3   C4   SING  N  N   8  
M55  C5   C4   SING  N  N   9  
M55  C5   C6   SING  N  N  10  
M55  C4   O4   SING  N  N  11  
M55  O6A  C6   DOUB  N  N  12  
M55  C6   O6B  SING  N  N  13  
M55  O6B  C01  SING  N  N  14  
M55  C01  C07  SING  N  N  15  
M55  C07  C06  DOUB  Y  N  16  
M55  C07  C02  SING  Y  N  17  
M55  C06  C05  SING  Y  N  18  
M55  C02  C03  DOUB  Y  N  19  
M55  C05  C04  DOUB  Y  N  20  
M55  C03  C04  SING  Y  N  21  
M55  C3   H3   SING  N  N  22  
M55  C4   H4   SING  N  N  23  
M55  C1   H1   SING  N  N  24  
M55  C01  H01  SING  N  N  25  
M55  C01  H02  SING  N  N  26  
M55  C02  H08  SING  N  N  27  
M55  C03  H09  SING  N  N  28  
M55  C04  H10  SING  N  N  29  
M55  C05  H11  SING  N  N  30  
M55  C06  H12  SING  N  N  31  
M55  C2   H2   SING  N  N  32  
M55  C5   H5   SING  N  N  33  
M55  O1   HO1  SING  N  N  34  
M55  O2   HO2  SING  N  N  35  
M55  O3   HO3  SING  N  N  36  
M55  O4   HO4  SING  N  N  37  
#   #
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
M55  InChI             InChI                 1.03   "InChI=1S/C13H16O7/c14-8-9(15)11(20-12(17)10(8)16)13(18)19-6-7-4-2-1-3-5-7/h1-5,8-12,14-17H,6H2/t8-,9-,10+,11-,12-/m0/s1"  
M55  InChIKey          InChI                 1.03   MYEUFSLWFIOAGY-SVNGYHJRSA-N  
M55  SMILES_CANONICAL  CACTVS                3.385  "O[C@H]1O[C@@H]([C@@H](O)[C@H](O)[C@H]1O)C(=O)OCc2ccccc2"  
M55  SMILES            CACTVS                3.385  "O[CH]1O[CH]([CH](O)[CH](O)[CH]1O)C(=O)OCc2ccccc2"  
M55  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1ccc(cc1)COC(=O)[C@@H]2[C@H]([C@@H]([C@H]([C@H](O2)O)O)O)O"  
M55  SMILES            "OpenEye OEToolkits"  2.0.7  "c1ccc(cc1)COC(=O)C2C(C(C(C(O2)O)O)O)O"  
#
_pdbx_chem_comp_identifier.comp_id          M55
_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       "(phenylmethyl) (2~{S},3~{S},4~{S},5~{R},6~{S})-3,4,5,6-tetrakis(oxidanyl)oxane-2-carboxylate"
#
_pdbx_chem_comp_related.comp_id            M55
_pdbx_chem_comp_related.related_comp_id    GCU
_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  M55  C1   GCU  C1   "Carbohydrate core"  
 2  M55  C2   GCU  C2   "Carbohydrate core"  
 3  M55  C3   GCU  C3   "Carbohydrate core"  
 4  M55  C4   GCU  C4   "Carbohydrate core"  
 5  M55  C5   GCU  C5   "Carbohydrate core"  
 6  M55  C6   GCU  C6   "Carbohydrate core"  
 7  M55  O6B  GCU  O6B  "Carbohydrate core"  
 8  M55  O1   GCU  O1   "Carbohydrate core"  
 9  M55  O2   GCU  O2   "Carbohydrate core"  
10  M55  O3   GCU  O3   "Carbohydrate core"  
11  M55  O4   GCU  O4   "Carbohydrate core"  
12  M55  O5   GCU  O5   "Carbohydrate core"  
13  M55  O6A  GCU  O6A  "Carbohydrate core"  
14  M55  H1   GCU  H1   "Carbohydrate core"  
15  M55  H2   GCU  H2   "Carbohydrate core"  
16  M55  H3   GCU  H3   "Carbohydrate core"  
17  M55  H4   GCU  H4   "Carbohydrate core"  
18  M55  H5   GCU  H5   "Carbohydrate core"  
19  M55  HO1  GCU  HO1  "Carbohydrate core"  
20  M55  HO2  GCU  HO2  "Carbohydrate core"  
21  M55  HO3  GCU  HO3  "Carbohydrate core"  
22  M55  HO4  GCU  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
M55  "CARBOHYDRATE ISOMER"                  D         PDB  ?  
M55  "CARBOHYDRATE RING"                    pyranose  PDB  ?  
M55  "CARBOHYDRATE ANOMER"                  alpha     PDB  ?  
M55  "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
M55  "Create component"          2019-10-03  EBI   
M55  "Initial release"           2019-11-27  RCSB  
M55  "Other modification"        2020-07-03  RCSB  
M55  "Modify parent residue"     2020-07-17  RCSB  
M55  "Modify name"               2020-07-17  RCSB  
M55  "Modify synonyms"           2020-07-17  RCSB  
M55  "Modify internal type"      2020-07-17  RCSB  
M55  "Modify linking type"       2020-07-17  RCSB  
M55  "Modify atom id"            2020-07-17  RCSB  
M55  "Modify component atom id"  2020-07-17  RCSB  
M55  "Modify leaving atom flag"  2020-07-17  RCSB  
##
