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 ##