data_8OFS # _model_server_result.job_id CCJUUMRj9bGLREr8rwmXag _model_server_result.datetime_utc '2024-11-24 01:15:30' _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 8ofs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 8OFS # _exptl.entry_id 8OFS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 309.27 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'N-acetyl-beta-neuraminic acid' _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 93.85 _cell.angle_gamma 90 _cell.entry_id 8OFS _cell.length_a 62.13 _cell.length_b 62.49 _cell.length_c 71.8 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8OFS _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 E N N ? 2 F N 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 33 A CYS 215 1_555 B SG CYS 33 B CYS 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 33 A CYS 215 1_555 C SG CYS 33 C CYS 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? disulf ? disulf3 B SG CYS 33 B CYS 215 1_555 C SG CYS 33 C CYS 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _chem_comp.formula 'C11 H19 N O9' _chem_comp.formula_weight 309.27 _chem_comp.id SLB _chem_comp.mon_nstd_flag . _chem_comp.name 'N-acetyl-beta-neuraminic acid' _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms 'N-acetylneuraminic acid;sialic acid;O-sialic acid;5-N-ACETYL-BETA-D-NEURAMINIC ACID;BETA-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 SLB sing 267 n n C1 O1A SLB doub 268 n n C1 O1B SLB sing 269 n n C2 C3 SLB sing 270 n n C2 O2 SLB sing 271 n n C2 O6 SLB sing 272 n n C3 C4 SLB sing 273 n n C3 H32 SLB sing 274 n n C3 H31 SLB sing 275 n n C4 C5 SLB sing 276 n n C4 O4 SLB sing 277 n n C4 H4 SLB sing 278 n n C5 C6 SLB sing 279 n n C5 N5 SLB sing 280 n n C5 H5 SLB sing 281 n n C6 C7 SLB sing 282 n n C6 O6 SLB sing 283 n n C6 H6 SLB sing 284 n n C7 C8 SLB sing 285 n n C7 O7 SLB sing 286 n n C7 H7 SLB sing 287 n n C8 C9 SLB sing 288 n n C8 O8 SLB sing 289 n n C8 H8 SLB sing 290 n n C9 O9 SLB sing 291 n n C9 H92 SLB sing 292 n n C9 H91 SLB sing 293 n n C10 C11 SLB sing 294 n n C10 N5 SLB sing 295 n n C10 O10 SLB doub 296 n n C11 H111 SLB sing 297 n n C11 H113 SLB sing 298 n n C11 H112 SLB sing 299 n n N5 HN5 SLB sing 300 n n O1B HO1B SLB sing 301 n n O2 HO2 SLB sing 302 n n O4 HO4 SLB sing 303 n n O7 HO7 SLB sing 304 n n O8 HO8 SLB sing 305 n n O9 HO9 SLB sing 306 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 SLB DNeup5Acb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 SLB 'N-acetyl-b-D-neuraminic acid' 'COMMON NAME' GMML 1 SLB b-D-Neup5Ac 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 SLB Neu5Ac 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 8OFS _atom_sites.fract_transf_matrix[1][1] 0.016095 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001083 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016003 _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] 0.013959 _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 D 2 SLB A 1 401 388 SLB SLB . E 2 SLB B 1 401 388 SLB SLB . F 2 SLB C 1 401 388 SLB SLB . # 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 SLB . . . E 2 30.01 -21.073 29.777 1 108.67 ? C1 SLB 401 B 1 HETATM 2 C C2 SLB . . . E 2 29.759 -20.529 28.374 1 101.09 ? C2 SLB 401 B 1 HETATM 3 C C3 SLB . . . E 2 28.923 -19.266 28.503 1 100.3 ? C3 SLB 401 B 1 HETATM 4 C C4 SLB . . . E 2 28.454 -18.724 27.158 1 100.71 ? C4 SLB 401 B 1 HETATM 5 C C5 SLB . . . E 2 27.918 -19.838 26.265 1 103 ? C5 SLB 401 B 1 HETATM 6 C C6 SLB . . . E 2 28.901 -21.017 26.191 1 102.75 ? C6 SLB 401 B 1 HETATM 7 C C7 SLB . . . E 2 28.429 -22.163 25.285 1 107.96 ? C7 SLB 401 B 1 HETATM 8 C C8 SLB . . . E 2 29.606 -22.719 24.39 1 107.2 ? C8 SLB 401 B 1 HETATM 9 C C9 SLB . . . E 2 30.811 -23.161 25.192 1 103.07 ? C9 SLB 401 B 1 HETATM 10 C C10 SLB . . . E 2 26.372 -19.021 24.547 1 118.06 ? C10 SLB 401 B 1 HETATM 11 C C11 SLB . . . E 2 26.23 -18.419 23.178 1 131.15 ? C11 SLB 401 B 1 HETATM 12 N N5 SLB . . . E 2 27.61 -19.297 24.945 1 109.84 ? N5 SLB 401 B 1 HETATM 13 O O1A SLB . . . E 2 29.47 -22.108 30.151 1 117.43 ? O1A SLB 401 B 1 HETATM 14 O O1B SLB . . . E 2 30.73 -20.434 30.528 1 111.67 ? O1B SLB 401 B 1 HETATM 15 O O2 SLB . . . E 2 31.007 -20.244 27.813 1 100.34 ? O2 SLB 401 B 1 HETATM 16 O O4 SLB . . . E 2 27.437 -17.742 27.364 1 100.71 ? O4 SLB 401 B 1 HETATM 17 O O6 SLB . . . E 2 29.106 -21.515 27.538 1 102.17 ? O6 SLB 401 B 1 HETATM 18 O O7 SLB . . . E 2 27.819 -23.204 26.059 1 108.97 ? O7 SLB 401 B 1 HETATM 19 O O8 SLB . . . E 2 29.173 -23.816 23.578 1 113.16 ? O8 SLB 401 B 1 HETATM 20 O O9 SLB . . . E 2 31.45 -22.051 25.825 1 102.51 ? O9 SLB 401 B 1 HETATM 21 O O10 SLB . . . E 2 25.402 -19.249 25.268 1 121.58 ? O10 SLB 401 B 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 21 #