data_NGE
#

_chem_comp.id                                   NGE
_chem_comp.name                                 "N-glycolyl-beta-neuraminic acid"
_chem_comp.type                                 "D-saccharide, beta linking"
_chem_comp.pdbx_type                            ATOMS
_chem_comp.formula                              "C11 H19 N O10"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "N-glycolylneuraminic acid; sialic acid"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2009-11-05
_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                       325.269
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    NGE
_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       2WX9
_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  NGE  "N-glycolylneuraminic acid"  PDB  ?  
2  NGE  "sialic 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
NGE  O9    O8    O  0  1  N  N  N   8.126   -6.124  -17.610   2.739   4.547  -0.186  O9    NGE   1  
NGE  C9    C8    C  0  1  N  N  N   7.249   -6.653  -16.620   1.470   3.913  -0.368  C9    NGE   2  
NGE  C8    C7    C  0  1  N  N  R   7.871   -7.545  -15.557   1.541   2.474   0.148  C8    NGE   3  
NGE  O8    O7    O  0  1  N  N  N   8.406   -8.700  -16.186   1.760   2.485   1.560  O8    NGE   4  
NGE  C7    C6    C  0  1  N  N  R   8.988   -6.781  -14.823   0.225   1.758  -0.158  C7    NGE   5  
NGE  O7    O6    O  0  1  N  N  N   8.396   -5.666  -14.169   0.005   1.748  -1.570  O7    NGE   6  
NGE  C6    C5    C  0  1  N  N  R   9.675   -7.716  -13.805   0.295   0.319   0.357  C6    NGE   7  
NGE  O6    O5    O  0  1  N  N  N   8.595   -8.282  -13.037   1.440  -0.331  -0.198  O6    NGE   8  
NGE  C1    C9    C  0  1  N  N  N   7.687   -9.557  -11.329   2.862  -2.252  -0.383  C1    NGE   9  
NGE  O1A   O9B   O  0  1  N  N  N   7.302  -10.739  -11.282   3.580  -1.549  -1.055  O1A   NGE  10  
NGE  O1B   O9A   O  0  1  N  N  N   7.062   -8.577  -10.824   3.175  -3.544  -0.193  O1B   NGE  11  
NGE  O2    O1    O  0  1  N  Y  N   9.429  -10.405  -12.798   1.741  -1.705   1.664  O2    NGE  12  
NGE  C3    C2    C  0  1  N  N  N  10.090   -8.748  -11.148   0.404  -2.514  -0.181  C3    NGE  13  
NGE  C4    C3    C  0  1  N  N  S  11.283   -8.173  -11.968  -0.865  -1.890   0.408  C4    NGE  14  
NGE  O4    O3    O  0  1  N  N  N  12.234   -7.682  -11.066  -2.009  -2.620  -0.040  O4    NGE  15  
NGE  C5    C4    C  0  1  N  N  R  10.662   -7.069  -12.873  -0.970  -0.435  -0.059  C5    NGE  16  
NGE  N5    N4    N  0  1  N  N  N  11.717   -6.349  -13.610  -2.141   0.194   0.557  N5    NGE  17  
NGE  C2    C1    C  0  1  N  N  S   8.980   -9.269  -12.094   1.616  -1.679   0.241  C2    NGE  18  
NGE  C10   C10   C  0  1  N  N  N  12.113   -5.150  -13.222  -3.355   0.065  -0.014  C10   NGE  19  
NGE  O10   O10   O  0  1  N  N  N  11.636   -4.505  -12.294  -3.478  -0.572  -1.039  O10   NGE  20  
NGE  C11   C11   C  0  1  N  N  N  13.194   -4.527  -14.034  -4.559   0.712   0.620  C11   NGE  21  
NGE  O11   O11   O  0  1  N  N  N  13.555   -5.235  -15.205  -5.719   0.434  -0.167  O11   NGE  22  
NGE  HO9   H8    H  0  1  N  Y  N   7.651   -6.006  -18.424   2.767   5.464  -0.492  HO9   NGE  23  
NGE  H91   H81C  H  0  1  N  N  N   6.796   -5.797  -16.099   0.708   4.461   0.187  H91   NGE  24  
NGE  H92   H82C  H  0  1  N  N  N   6.546   -7.298  -17.168   1.215   3.907  -1.427  H92   NGE  25  
NGE  H8    H7    H  0  1  N  N  N   7.107   -7.842  -14.824   2.362   1.952  -0.343  H8    NGE  26  
NGE  HO8   HA    H  0  1  N  Y  N   8.525   -8.530  -17.113   1.067   2.934   2.063  HO8   NGE  27  
NGE  H7    H6    H  0  1  N  N  N   9.755   -6.431  -15.530  -0.596   2.280   0.333  H7    NGE  28  
NGE  HO7   HB    H  0  1  N  Y  N   8.264   -5.870  -13.251   0.698   1.298  -2.073  HO7   NGE  29  
NGE  H6    H5    H  0  1  N  N  N  10.283   -8.443  -14.363   0.373   0.326   1.444  H6    NGE  30  
NGE  H5    H4    H  0  1  N  N  N  10.138   -6.324  -12.257  -1.070  -0.408  -1.145  H5    NGE  31  
NGE  HO1B  H9A   H  0  0  N  N  N   6.265   -8.888  -10.411   3.984  -3.866  -0.613  HO1B  NGE  32  
NGE  HO2   H1    H  0  1  N  Y  N   9.530  -10.189  -13.718   2.489  -1.195   2.002  HO2   NGE  33  
NGE  H31   H21C  H  0  1  N  N  N  10.450   -9.579  -10.523   0.516  -3.532   0.191  H31   NGE  34  
NGE  H32   H22C  H  0  1  N  N  N   9.674   -7.948  -10.518   0.332  -2.528  -1.268  H32   NGE  35  
NGE  H4    H3    H  0  1  N  N  N  11.801   -8.911  -12.598  -0.816  -1.922   1.497  H4    NGE  36  
NGE  HO4   HC    H  0  1  N  Y  N  13.066   -7.571  -11.511  -2.006  -3.553   0.215  HO4   NGE  37  
NGE  HN5   HD    H  0  1  N  N  N  12.137   -6.773  -14.412  -2.042   0.703   1.377  HN5   NGE  38  
NGE  H111  H111  H  0  0  N  N  N  12.845   -3.530  -14.343  -4.698   0.315   1.625  H111  NGE  39  
NGE  H112  H112  H  0  0  N  N  N  14.089   -4.512  -13.395  -4.406   1.790   0.674  H112  NGE  40  
NGE  HO11  H11   H  0  0  N  N  N  13.636   -4.627  -15.931  -6.533   0.821   0.183  HO11  NGE  41  
#   #
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
NGE  O9   C9    SING  N  N   1  
NGE  C9   C8    SING  N  N   2  
NGE  C8   O8    SING  N  N   3  
NGE  C8   C7    SING  N  N   4  
NGE  C7   O7    SING  N  N   5  
NGE  C7   C6    SING  N  N   6  
NGE  C6   O6    SING  N  N   7  
NGE  C6   C5    SING  N  N   8  
NGE  O6   C2    SING  N  N   9  
NGE  C1   O1A   DOUB  N  N  10  
NGE  C1   O1B   SING  N  N  11  
NGE  C1   C2    SING  N  N  12  
NGE  O2   C2    SING  N  N  13  
NGE  C3   C4    SING  N  N  14  
NGE  C3   C2    SING  N  N  15  
NGE  C4   O4    SING  N  N  16  
NGE  C4   C5    SING  N  N  17  
NGE  C5   N5    SING  N  N  18  
NGE  N5   C10   SING  N  N  19  
NGE  C10  O10   DOUB  N  N  20  
NGE  C10  C11   SING  N  N  21  
NGE  C11  O11   SING  N  N  22  
NGE  O9   HO9   SING  N  N  23  
NGE  C9   H91   SING  N  N  24  
NGE  C9   H92   SING  N  N  25  
NGE  C8   H8    SING  N  N  26  
NGE  O8   HO8   SING  N  N  27  
NGE  C7   H7    SING  N  N  28  
NGE  O7   HO7   SING  N  N  29  
NGE  C6   H6    SING  N  N  30  
NGE  C5   H5    SING  N  N  31  
NGE  O1B  HO1B  SING  N  N  32  
NGE  O2   HO2   SING  N  N  33  
NGE  C3   H31   SING  N  N  34  
NGE  C3   H32   SING  N  N  35  
NGE  C4   H4    SING  N  N  36  
NGE  O4   HO4   SING  N  N  37  
NGE  N5   HN5   SING  N  N  38  
NGE  C11  H111  SING  N  N  39  
NGE  C11  H112  SING  N  N  40  
NGE  O11  HO11  SING  N  N  41  
#   #
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
NGE  SMILES            ACDLabs               10.04  "O=C(O)C1(O)OC(C(O)C(O)CO)C(NC(=O)CO)C(O)C1"  
NGE  SMILES_CANONICAL  CACTVS                3.352  "OC[C@@H](O)[C@@H](O)[C@@H]1O[C@@](O)(C[C@H](O)[C@H]1NC(=O)CO)C(O)=O"  
NGE  SMILES            CACTVS                3.352  "OC[CH](O)[CH](O)[CH]1O[C](O)(C[CH](O)[CH]1NC(=O)CO)C(O)=O"  
NGE  SMILES_CANONICAL  "OpenEye OEToolkits"  1.6.1  "C1[C@@H]([C@H]([C@@H](O[C@@]1(C(=O)O)O)[C@@H]([C@@H](CO)O)O)NC(=O)CO)O"  
NGE  SMILES            "OpenEye OEToolkits"  1.6.1  "C1C(C(C(OC1(C(=O)O)O)C(C(CO)O)O)NC(=O)CO)O"  
NGE  InChI             InChI                 1.03   "InChI=1S/C11H19NO10/c13-2-5(16)8(18)9-7(12-6(17)3-14)4(15)1-11(21,22-9)10(19)20/h4-5,7-9,13-16,18,21H,1-3H2,(H,12,17)(H,19,20)/t4-,5+,7+,8+,9+,11-/m0/s1"  
NGE  InChIKey          InChI                 1.03   FDJKUWYYUZCUJX-AJKRCSPLSA-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
NGE  "SYSTEMATIC NAME"                      ACDLabs               10.04  "3,5-dideoxy-5-[(hydroxyacetyl)amino]-D-glycero-beta-D-galacto-non-2-ulopyranosonic acid"  
NGE  "SYSTEMATIC NAME"                      "OpenEye OEToolkits"  1.6.1  "(2S,4S,5R,6R)-2,4-dihydroxy-5-(2-hydroxyethanoylamino)-6-[(1R,2R)-1,2,3-trihydroxypropyl]oxane-2-carboxylic acid"  
NGE  "CONDENSED IUPAC CARBOHYDRATE SYMBOL"  GMML                  1.0    DNeup5Gcb  
NGE  "COMMON NAME"                          GMML                  1.0    "N-glycolyl-b-D-neuraminic acid"  
NGE  "IUPAC CARBOHYDRATE SYMBOL"            PDB-CARE              1.0    b-D-Neup5Gc  
NGE  "SNFG CARBOHYDRATE SYMBOL"             GMML                  1.0    Neu5Gc  
#   #
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
NGE  "CARBOHYDRATE ISOMER"                  D         PDB  ?  
NGE  "CARBOHYDRATE RING"                    pyranose  PDB  ?  
NGE  "CARBOHYDRATE ANOMER"                  beta      PDB  ?  
NGE  "CARBOHYDRATE PRIMARY CARBONYL GROUP"  ketose    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
NGE  "Create component"          2009-11-05  EBI   
NGE  "Modify descriptor"         2011-06-04  RCSB  
NGE  "Other modification"        2017-10-10  EBI   
NGE  "Other modification"        2019-08-12  RCSB  
NGE  "Other modification"        2019-12-19  RCSB  
NGE  "Other modification"        2020-07-03  RCSB  
NGE  "Modify name"               2020-07-17  RCSB  
NGE  "Modify synonyms"           2020-07-17  RCSB  
NGE  "Modify atom id"            2020-07-17  RCSB  
NGE  "Modify component atom id"  2020-07-17  RCSB  
##
