data_2ZG1 # _model_server_result.job_id R4dgcc9P3G_C-doRp2CV-g _model_server_result.datetime_utc '2024-10-15 14:29:27' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 2zg1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":241}' # _entry.id 2ZG1 # _exptl.entry_id 2ZG1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 309.27 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'N-acetyl-alpha-neuraminic acid' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 2ZG1 _cell.length_a 94.044 _cell.length_b 94.044 _cell.length_c 209.888 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ZG1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 17 A CYS 41 1_555 A SG CYS 151 A CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf2 A SG CYS 22 A CYS 46 1_555 A SG CYS 82 A CYS 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 145 A CYS 169 1_555 A SG CYS 194 A CYS 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? # _chem_comp.formula 'C11 H19 N O9' _chem_comp.formula_weight 309.27 _chem_comp.id SIA _chem_comp.mon_nstd_flag . _chem_comp.name 'N-acetyl-alpha-neuraminic acid' _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms 'N-acetylneuraminic acid;sialic acid;alpha-sialic acid;O-SIALIC ACID' # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 C2 SIA sing 290 n n C1 O1A SIA doub 291 n n C1 O1B SIA sing 292 n n C2 C3 SIA sing 293 n n C2 O2 SIA sing 294 n n C2 O6 SIA sing 295 n n C3 C4 SIA sing 296 n n C3 H32 SIA sing 297 n n C3 H31 SIA sing 298 n n C4 C5 SIA sing 299 n n C4 O4 SIA sing 300 n n C4 H4 SIA sing 301 n n C5 C6 SIA sing 302 n n C5 N5 SIA sing 303 n n C5 H5 SIA sing 304 n n C6 C7 SIA sing 305 n n C6 O6 SIA sing 306 n n C6 H6 SIA sing 307 n n C7 C8 SIA sing 308 n n C7 O7 SIA sing 309 n n C7 H7 SIA sing 310 n n C8 C9 SIA sing 311 n n C8 O8 SIA sing 312 n n C8 H8 SIA sing 313 n n C9 O9 SIA sing 314 n n C9 H92 SIA sing 315 n n C9 H91 SIA sing 316 n n C10 C11 SIA sing 317 n n C10 N5 SIA sing 318 n n C10 O10 SIA doub 319 n n C11 H111 SIA sing 320 n n C11 H113 SIA sing 321 n n C11 H112 SIA sing 322 n n N5 HN5 SIA sing 323 n n O1B HO1B SIA sing 324 n n O2 HO2 SIA sing 325 n n O4 HO4 SIA sing 326 n n O7 HO7 SIA sing 327 n n O8 HO8 SIA sing 328 n n O9 HO9 SIA sing 329 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version SIA DNeup5Aca 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 SIA 'N-acetyl-a-D-neuraminic acid' 'COMMON NAME' GMML 1 SIA a-D-Neup5Ac 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 SIA Neu5Ac 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 2ZG1 _atom_sites.fract_transf_matrix[1][1] 0.010633 _atom_sites.fract_transf_matrix[1][2] 0.006139 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012278 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.004764 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 SIA A 1 241 241 SIA SIA . C 3 HOH A 1 242 242 HOH HOH . C 3 HOH A 2 243 243 HOH HOH . C 3 HOH A 3 244 244 HOH HOH . C 3 HOH A 4 245 245 HOH HOH . C 3 HOH A 5 246 246 HOH HOH . C 3 HOH A 6 247 247 HOH HOH . C 3 HOH A 7 248 248 HOH HOH . C 3 HOH A 8 249 249 HOH HOH . C 3 HOH A 9 250 250 HOH HOH . C 3 HOH A 10 251 251 HOH HOH . C 3 HOH A 11 252 252 HOH HOH . C 3 HOH A 12 253 253 HOH HOH . C 3 HOH A 13 254 254 HOH HOH . C 3 HOH A 14 255 255 HOH HOH . C 3 HOH A 15 256 256 HOH HOH . C 3 HOH A 16 257 257 HOH HOH . C 3 HOH A 17 258 258 HOH HOH . C 3 HOH A 18 259 259 HOH HOH . C 3 HOH A 19 260 260 HOH HOH . C 3 HOH A 20 261 261 HOH HOH . C 3 HOH A 21 262 262 HOH HOH . C 3 HOH A 22 263 263 HOH HOH . C 3 HOH A 23 264 264 HOH HOH . C 3 HOH A 24 265 265 HOH HOH . C 3 HOH A 25 266 266 HOH HOH . C 3 HOH A 26 267 267 HOH HOH . C 3 HOH A 27 268 268 HOH HOH . C 3 HOH A 28 269 269 HOH HOH . C 3 HOH A 29 270 270 HOH HOH . C 3 HOH A 30 271 271 HOH HOH . C 3 HOH A 31 272 272 HOH HOH . C 3 HOH A 32 273 273 HOH HOH . C 3 HOH A 33 274 274 HOH HOH . C 3 HOH A 34 275 275 HOH HOH . C 3 HOH A 35 276 276 HOH HOH . C 3 HOH A 36 277 277 HOH HOH . C 3 HOH A 37 278 278 HOH HOH . C 3 HOH A 38 279 279 HOH HOH . C 3 HOH A 39 280 280 HOH HOH . C 3 HOH A 40 281 281 HOH HOH . C 3 HOH A 41 282 282 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 SIA . . . B 2 47.791 11.091 48.2 1 148.39 ? C1 SIA 241 A 1 HETATM 2 C C2 SIA . . . B 2 48.301 10.113 49.253 1 148.47 ? C2 SIA 241 A 1 HETATM 3 C C3 SIA . . . B 2 48.279 10.783 50.632 1 148.2 ? C3 SIA 241 A 1 HETATM 4 C C4 SIA . . . B 2 46.844 11.09 51.065 1 147.91 ? C4 SIA 241 A 1 HETATM 5 C C5 SIA . . . B 2 45.988 9.826 50.987 1 147.7 ? C5 SIA 241 A 1 HETATM 6 C C6 SIA . . . B 2 46.064 9.253 49.569 1 146.93 ? C6 SIA 241 A 1 HETATM 7 C C7 SIA . . . B 2 45.197 7.993 49.439 1 145.21 ? C7 SIA 241 A 1 HETATM 8 C C8 SIA . . . B 2 45.703 7.085 48.319 1 143.67 ? C8 SIA 241 A 1 HETATM 9 C C9 SIA . . . B 2 44.729 5.939 48.077 1 142.93 ? C9 SIA 241 A 1 HETATM 10 C C10 SIA . . . B 2 44.116 9.821 52.532 1 149.81 ? C10 SIA 241 A 1 HETATM 11 C C11 SIA . . . B 2 45.077 9.667 53.707 1 150.64 ? C11 SIA 241 A 1 HETATM 12 N N5 SIA . . . B 2 44.614 10.14 51.337 1 148.7 ? N5 SIA 241 A 1 HETATM 13 O O1A SIA . . . B 2 47.617 12.288 48.521 1 147.6 ? O1A SIA 241 A 1 HETATM 14 O O1B SIA . . . B 2 47.571 10.663 47.047 1 148.37 ? O1B SIA 241 A 1 HETATM 15 O O2 SIA . . . B 2 49.588 9.709 48.939 1 107.07 ? O2 SIA 241 A 1 HETATM 16 O O4 SIA . . . B 2 46.839 11.589 52.394 1 147.81 ? O4 SIA 241 A 1 HETATM 17 O O6 SIA . . . B 2 47.445 8.954 49.238 1 148.59 ? O6 SIA 241 A 1 HETATM 18 O O7 SIA . . . B 2 45.196 7.274 50.664 1 144.62 ? O7 SIA 241 A 1 HETATM 19 O O8 SIA . . . B 2 45.856 7.836 47.128 1 143.86 ? O8 SIA 241 A 1 HETATM 20 O O9 SIA . . . B 2 45.186 5.15 46.988 1 142.06 ? O9 SIA 241 A 1 HETATM 21 O O10 SIA . . . B 2 42.909 9.665 52.72 1 149.99 ? O10 SIA 241 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 22 _model_server_stats.element_count 21 #