data_5OGL # _model_server_result.job_id HjLF72Q4e4Qm2ENPlCBRyQ _model_server_result.datetime_utc '2025-08-31 14:23:09' _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 5ogl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":804}' # _entry.id 5OGL # _exptl.entry_id 5OGL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 5 _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 5OGL _cell.length_a 83.94 _cell.length_b 116.18 _cell.length_c 172.02 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5OGL _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,E,F,G,H _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 5 _struct_asym.id F _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 covale ? covale1 B C THR 6 B THR 15 1_555 B N PPN 7 B PPN 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale2 B C PPN 7 B PPN 16 1_555 B N GLY 8 B GLY 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? metalc ? metalc1 A OE1 GLU 43 A GLU 43 1_555 F NA NA . A NA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? metalc ? metalc2 A OE2 GLU 43 A GLU 43 1_555 F NA NA . A NA 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.868 ? metalc ? metalc3 A OD2 ASP 56 A ASP 56 1_555 C MN MN . A MN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.61 ? metalc ? metalc4 A OE1 GLN 73 A GLN 73 1_555 D MN MN . A MN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.587 ? metalc ? metalc5 A OD2 ASP 76 A ASP 76 1_555 D MN MN . A MN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc6 A OD1 ASP 154 A ASP 154 1_555 C MN MN . A MN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc7 A OD1 ASP 475 A ASP 475 1_555 D MN MN . A MN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? metalc ? metalc8 C MN MN . A MN 801 1_555 G O HOH . A HOH 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc9 C MN MN . A MN 801 1_555 G O HOH . A HOH 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? metalc ? metalc10 C MN MN . A MN 801 1_555 G O HOH . A HOH 910 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc11 D MN MN . A MN 802 1_555 G O HOH . A HOH 906 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? # _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 5OGL _atom_sites.fract_transf_matrix[1][1] 0.011913 _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] 0.008607 _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] 0.005813 _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 MN A 1 801 1 MN MN . D 3 MN A 1 802 2 MN MN . E 4 9UB A 1 803 1 9UB JB1 . F 5 NA A 1 804 1 NA NA . G 6 HOH A 1 901 70 HOH HOH . G 6 HOH A 2 902 76 HOH HOH . G 6 HOH A 3 903 69 HOH HOH . G 6 HOH A 4 904 49 HOH HOH . G 6 HOH A 5 905 1 HOH HOH . G 6 HOH A 6 906 16 HOH HOH . G 6 HOH A 7 907 42 HOH HOH . G 6 HOH A 8 908 55 HOH HOH . G 6 HOH A 9 909 2 HOH HOH . G 6 HOH A 10 910 77 HOH HOH . G 6 HOH A 11 911 32 HOH HOH . G 6 HOH A 12 912 71 HOH HOH . G 6 HOH A 13 913 5 HOH HOH . G 6 HOH A 14 914 3 HOH HOH . G 6 HOH A 15 915 75 HOH HOH . G 6 HOH A 16 916 74 HOH HOH . G 6 HOH A 17 917 50 HOH HOH . G 6 HOH A 18 918 72 HOH HOH . G 6 HOH A 19 919 73 HOH HOH . H 6 HOH B 1 101 57 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 F _atom_site.label_entity_id 5 _atom_site.Cartn_x 110.057 _atom_site.Cartn_y 19.21 _atom_site.Cartn_z 181.166 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 55.16 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 804 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 345 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #