data_2WRB # _model_server_result.job_id SjuVBmJFOvhuBeSh8KNYcQ _model_server_result.datetime_utc '2024-10-17 11:25:18' _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 2wrb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1488}' # _entry.id 2WRB # _exptl.entry_id 2WRB _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 90 _cell.entry_id 2WRB _cell.length_a 83.359 _cell.length_b 126.303 _cell.length_c 220.956 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2WRB _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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 D _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 57 A CYS 46 1_555 A SG CYS 288 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf2 A SG CYS 70 A CYS 59 1_555 A SG CYS 82 A CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 A SG CYS 105 A CYS 94 1_555 A SG CYS 149 A CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf4 A SG CYS 292 A CYS 281 1_555 A SG CYS 316 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf5 A SG CYS 484 A CYS 473 1_555 A SG CYS 488 A CYS 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf6 B SG CYS 19 B CYS 8 1_555 B SG CYS 477 B CYS 466 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf7 B SG CYS 57 B CYS 46 1_555 B SG CYS 288 B CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf8 B SG CYS 70 B CYS 59 1_555 B SG CYS 82 B CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf9 B SG CYS 105 B CYS 94 1_555 B SG CYS 149 B CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf10 B SG CYS 292 B CYS 281 1_555 B SG CYS 316 B CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf11 B SG CYS 484 B CYS 473 1_555 B SG CYS 488 B CYS 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf12 C SG CYS 57 C CYS 46 1_555 C SG CYS 288 C CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf13 C SG CYS 70 C CYS 59 1_555 C SG CYS 82 C CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf14 C SG CYS 105 C CYS 94 1_555 C SG CYS 149 C CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf15 C SG CYS 292 C CYS 281 1_555 C SG CYS 316 C CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? # _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 288 n n C1 O1A SIA doub 289 n n C1 O1B SIA sing 290 n n C2 C3 SIA sing 291 n n C2 O2 SIA sing 292 n n C2 O6 SIA sing 293 n n C3 C4 SIA sing 294 n n C3 H32 SIA sing 295 n n C3 H31 SIA sing 296 n n C4 C5 SIA sing 297 n n C4 O4 SIA sing 298 n n C4 H4 SIA sing 299 n n C5 C6 SIA sing 300 n n C5 N5 SIA sing 301 n n C5 H5 SIA sing 302 n n C6 C7 SIA sing 303 n n C6 O6 SIA sing 304 n n C6 H6 SIA sing 305 n n C7 C8 SIA sing 306 n n C7 O7 SIA sing 307 n n C7 H7 SIA sing 308 n n C8 C9 SIA sing 309 n n C8 O8 SIA sing 310 n n C8 H8 SIA sing 311 n n C9 O9 SIA sing 312 n n C9 H92 SIA sing 313 n n C9 H91 SIA sing 314 n n C10 C11 SIA sing 315 n n C10 N5 SIA sing 316 n n C10 O10 SIA doub 317 n n C11 H111 SIA sing 318 n n C11 H113 SIA sing 319 n n C11 H112 SIA sing 320 n n N5 HN5 SIA sing 321 n n O1B HO1B SIA sing 322 n n O2 HO2 SIA sing 323 n n O4 HO4 SIA sing 324 n n O7 HO7 SIA sing 325 n n O8 HO8 SIA sing 326 n n O9 HO9 SIA sing 327 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 2WRB _atom_sites.fract_transf_matrix[1][1] 0.011996 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007917 _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] 0.004526 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id D _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id SIA _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 1488 _pdbx_nonpoly_scheme.auth_seq_num 1488 _pdbx_nonpoly_scheme.pdb_mon_id SIA _pdbx_nonpoly_scheme.auth_mon_id SIA _pdbx_nonpoly_scheme.pdb_ins_code . # 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 . . . D 2 36.805 23.941 49.844 1 110.58 ? C1 SIA 1488 A 1 HETATM 2 C C2 SIA . . . D 2 37.126 24.653 51.141 1 108.72 ? C2 SIA 1488 A 1 HETATM 3 C C3 SIA . . . D 2 37.818 25.99 50.848 1 106.91 ? C3 SIA 1488 A 1 HETATM 4 C C4 SIA . . . D 2 36.811 27.047 50.405 1 106.09 ? C4 SIA 1488 A 1 HETATM 5 C C5 SIA . . . D 2 35.651 27.084 51.378 1 105.01 ? C5 SIA 1488 A 1 HETATM 6 C C6 SIA . . . D 2 34.986 25.718 51.356 1 104.09 ? C6 SIA 1488 A 1 HETATM 7 C C7 SIA . . . D 2 33.683 25.725 52.153 1 102.01 ? C7 SIA 1488 A 1 HETATM 8 C C8 SIA . . . D 2 33.045 24.34 52.178 1 100.97 ? C8 SIA 1488 A 1 HETATM 9 C C9 SIA . . . D 2 31.563 24.427 52.523 1 98.7 ? C9 SIA 1488 A 1 HETATM 10 C C10 SIA . . . D 2 34.163 28.959 51.848 1 103.65 ? C10 SIA 1488 A 1 HETATM 11 C C11 SIA . . . D 2 34.571 28.72 53.296 1 101.99 ? C11 SIA 1488 A 1 HETATM 12 N N5 SIA . . . D 2 34.712 28.132 50.969 1 103.09 ? N5 SIA 1488 A 1 HETATM 13 O O1A SIA . . . D 2 37.745 23.779 49.046 1 112.37 ? O1A SIA 1488 A 1 HETATM 14 O O1B SIA . . . D 2 35.634 23.552 49.69 1 110.49 ? O1B SIA 1488 A 1 HETATM 15 O O2 SIA . . . D 2 38.052 23.842 51.84 1 111.49 ? O2 SIA 1488 A 1 HETATM 16 O O4 SIA . . . D 2 37.438 28.327 50.344 1 106.11 ? O4 SIA 1488 A 1 HETATM 17 O O6 SIA . . . D 2 35.934 24.817 51.93 1 107.72 ? O6 SIA 1488 A 1 HETATM 18 O O7 SIA . . . D 2 33.95 26.129 53.484 1 101.64 ? O7 SIA 1488 A 1 HETATM 19 O O8 SIA . . . D 2 33.189 23.744 50.896 1 101.12 ? O8 SIA 1488 A 1 HETATM 20 O O9 SIA . . . D 2 31.228 23.421 53.482 1 102.17 ? O9 SIA 1488 A 1 HETATM 21 O O10 SIA . . . D 2 33.375 29.85 51.556 1 106.25 ? O10 SIA 1488 A 1 # _model_server_stats.io_time_ms 144 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 21 #