data_5GZF # _model_server_result.job_id w7b9W6q73hqUCy5uGaWTsg _model_server_result.datetime_utc '2024-12-23 06:35:40' _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 5gzf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":202}' # _entry.id 5GZF # _exptl.entry_id 5GZF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 5GZF _cell.length_a 48.871 _cell.length_b 48.871 _cell.length_c 159.725 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GZF _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GAL _pdbx_entity_branch_link.comp_id_2 BGC _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B BGC 1 B 1 BGC C 1 B4H 2 n B GAL 2 B 2 GAL C 1 B4H # 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 covale ? covale1 B O4 BGC . B BGC 1 1_555 B C1 GAL . B GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.403 sing metalc ? metalc1 A OD1 ASP 28 A ASP 25 1_555 D NI NI . A NI 203 5_444 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? metalc ? metalc2 A NE2 HIS 41 A HIS 38 1_555 D NI NI . A NI 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.242 ? metalc ? metalc3 A NE2 HIS 150 A HIS 147 1_555 D NI NI . A NI 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc4 C NA NA . A NA 202 1_555 B O3 GAL . B GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.084 ? metalc ? metalc5 D NI NI . A NI 203 1_555 E O HOH . A HOH 340 5_454 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc6 D NI NI . A NI 203 1_555 E O HOH . A HOH 356 5_454 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5GZF _atom_sites.fract_transf_matrix[1][1] 0.020462 _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] 0.020462 _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] 0.006261 _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 C 3 NA A 1 202 1 NA NA . D 4 NI A 1 203 1 NI NI . E 5 HOH A 1 301 80 HOH HOH . E 5 HOH A 2 302 32 HOH HOH . E 5 HOH A 3 303 79 HOH HOH . E 5 HOH A 4 304 18 HOH HOH . E 5 HOH A 5 305 50 HOH HOH . E 5 HOH A 6 306 38 HOH HOH . E 5 HOH A 7 307 36 HOH HOH . E 5 HOH A 8 308 41 HOH HOH . E 5 HOH A 9 309 1 HOH HOH . E 5 HOH A 10 310 5 HOH HOH . E 5 HOH A 11 311 3 HOH HOH . E 5 HOH A 12 312 47 HOH HOH . E 5 HOH A 13 313 53 HOH HOH . E 5 HOH A 14 314 22 HOH HOH . E 5 HOH A 15 315 71 HOH HOH . E 5 HOH A 16 316 49 HOH HOH . E 5 HOH A 17 317 29 HOH HOH . E 5 HOH A 18 318 15 HOH HOH . E 5 HOH A 19 319 21 HOH HOH . E 5 HOH A 20 320 20 HOH HOH . E 5 HOH A 21 321 55 HOH HOH . E 5 HOH A 22 322 14 HOH HOH . E 5 HOH A 23 323 35 HOH HOH . E 5 HOH A 24 324 60 HOH HOH . E 5 HOH A 25 325 73 HOH HOH . E 5 HOH A 26 326 37 HOH HOH . E 5 HOH A 27 327 56 HOH HOH . E 5 HOH A 28 328 4 HOH HOH . E 5 HOH A 29 329 67 HOH HOH . E 5 HOH A 30 330 7 HOH HOH . E 5 HOH A 31 331 44 HOH HOH . E 5 HOH A 32 332 9 HOH HOH . E 5 HOH A 33 333 23 HOH HOH . E 5 HOH A 34 334 27 HOH HOH . E 5 HOH A 35 335 17 HOH HOH . E 5 HOH A 36 336 42 HOH HOH . E 5 HOH A 37 337 8 HOH HOH . E 5 HOH A 38 338 64 HOH HOH . E 5 HOH A 39 339 81 HOH HOH . E 5 HOH A 40 340 33 HOH HOH . E 5 HOH A 41 341 51 HOH HOH . E 5 HOH A 42 342 25 HOH HOH . E 5 HOH A 43 343 6 HOH HOH . E 5 HOH A 44 344 59 HOH HOH . E 5 HOH A 45 345 13 HOH HOH . E 5 HOH A 46 346 72 HOH HOH . E 5 HOH A 47 347 86 HOH HOH . E 5 HOH A 48 348 43 HOH HOH . E 5 HOH A 49 349 34 HOH HOH . E 5 HOH A 50 350 89 HOH HOH . E 5 HOH A 51 351 24 HOH HOH . E 5 HOH A 52 352 69 HOH HOH . E 5 HOH A 53 353 39 HOH HOH . E 5 HOH A 54 354 87 HOH HOH . E 5 HOH A 55 355 12 HOH HOH . E 5 HOH A 56 356 28 HOH HOH . E 5 HOH A 57 357 11 HOH HOH . E 5 HOH A 58 358 70 HOH HOH . E 5 HOH A 59 359 88 HOH HOH . E 5 HOH A 60 360 61 HOH HOH . E 5 HOH A 61 361 65 HOH HOH . E 5 HOH A 62 362 77 HOH HOH . E 5 HOH A 63 363 57 HOH HOH . E 5 HOH A 64 364 10 HOH HOH . E 5 HOH A 65 365 75 HOH HOH . E 5 HOH A 66 366 76 HOH HOH . E 5 HOH A 67 367 26 HOH HOH . E 5 HOH A 68 368 66 HOH HOH . E 5 HOH A 69 369 63 HOH HOH . E 5 HOH A 70 370 83 HOH HOH . E 5 HOH A 71 371 58 HOH HOH . E 5 HOH A 72 372 52 HOH HOH . E 5 HOH A 73 373 16 HOH HOH . E 5 HOH A 74 374 85 HOH HOH . E 5 HOH A 75 375 40 HOH HOH . E 5 HOH A 76 376 30 HOH HOH . E 5 HOH A 77 377 78 HOH HOH . E 5 HOH A 78 378 2 HOH HOH . E 5 HOH A 79 379 68 HOH HOH . E 5 HOH A 80 380 45 HOH HOH . E 5 HOH A 81 381 46 HOH HOH . E 5 HOH A 82 382 82 HOH HOH . E 5 HOH A 83 383 54 HOH HOH . E 5 HOH A 84 384 74 HOH HOH . E 5 HOH A 85 385 31 HOH HOH . E 5 HOH A 86 386 84 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id C _atom_site.label_entity_id 3 _atom_site.Cartn_x -19.676 _atom_site.Cartn_y 1.496 _atom_site.Cartn_z -1.43 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 35.01 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 202 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 518 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 1 #