data_3THX # _model_server_result.job_id uM6G9kQ9D3JFgn7wgwjn0w _model_server_result.datetime_utc '2025-02-18 09:29:17' _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 3thx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1}' # _entry.id 3THX # _exptl.entry_id 3THX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 6 _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 67.88 _cell.angle_beta 86.51 _cell.angle_gamma 72.86 _cell.entry_id 3THX _cell.length_a 67.12 _cell.length_b 91.54 _cell.length_c 95.58 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3THX _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 6 _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 hydrog 'DT-DG MISPAIR' hydrog1 C O2 DT 3 D DT 3 1_555 D N2 DG 25 E DG 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog2 C O2 DC 4 D DC 4 1_555 D N2 DG 24 E DG 49 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DT-DA PAIR' hydrog3 C N3 DT 5 D DT 5 1_555 D N1 DA 23 E DA 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 C N1 DA 6 D DA 6 1_555 D N3 DT 22 E DT 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 C N6 DA 6 D DA 6 1_555 D O4 DT 22 E DT 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 C N3 DT 7 D DT 7 1_555 D N1 DA 21 E DA 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 C O4 DT 7 D DT 7 1_555 D N6 DA 21 E DA 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog8 C O2 DC 8 D DC 8 1_555 D N2 DG 20 E DG 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 C N3 DT 9 D DT 9 1_555 D N1 DA 19 E DA 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 C O4 DT 9 D DT 9 1_555 D N6 DA 19 E DA 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 C N1 DG 10 D DG 10 1_555 D N3 DC 18 E DC 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 C N2 DG 10 D DG 10 1_555 D O2 DC 18 E DC 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 C O6 DG 10 D DG 10 1_555 D N4 DC 18 E DC 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 C N1 DA 11 D DA 11 1_555 D N3 DT 17 E DT 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 C N6 DA 11 D DA 11 1_555 D O4 DT 17 E DT 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 C N1 DA 12 D DA 12 1_555 D N3 DT 16 E DT 41 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 C N6 DA 12 D DA 12 1_555 D O4 DT 16 E DT 41 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog18 C N1 DG 13 D DG 13 1_555 D N3 DC 15 E DC 40 1_555 ? ? ? ? A ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 C N3 DC 15 D DC 15 1_555 D N1 DG 10 E DG 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 C N4 DC 15 D DC 15 1_555 D O6 DG 10 E DG 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 C O2 DC 15 D DC 15 1_555 D N2 DG 10 E DG 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 C N1 DG 16 D DG 16 1_555 D N3 DC 9 E DC 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 C N2 DG 16 D DG 16 1_555 D O2 DC 9 E DC 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 C O6 DG 16 D DG 16 1_555 D N4 DC 9 E DC 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 C N1 DA 17 D DA 17 1_555 D N3 DT 8 E DT 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 C N6 DA 17 D DA 17 1_555 D O4 DT 8 E DT 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 C N3 DT 18 D DT 18 1_555 D N1 DA 7 E DA 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 C O4 DT 18 D DT 18 1_555 D N6 DA 7 E DA 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog29 C O2 DC 19 D DC 19 1_555 D N2 DG 6 E DG 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 C N1 DG 20 D DG 20 1_555 D N3 DC 5 E DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 C N2 DG 20 D DG 20 1_555 D O2 DC 5 E DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 C O6 DG 20 D DG 20 1_555 D N4 DC 5 E DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 C N1 DA 21 D DA 21 1_555 D N3 DT 4 E DT 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog34 C N6 DA 21 D DA 21 1_555 D O4 DT 4 E DT 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DT-DC MISPAIR' hydrog35 C O4 DT 22 D DT 22 1_555 D N4 DC 2 E DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog36 C N3 DT 22 D DT 22 1_555 D N1 DA 3 E DA 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog37 C O4 DT 22 D DT 22 1_555 D N6 DA 3 E DA 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog38 C N1 DG 23 D DG 23 1_555 D N3 DC 2 E DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog39 C N2 DG 23 D DG 23 1_555 D O2 DC 2 E DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog40 C O6 DG 23 D DG 23 1_555 D N4 DC 2 E DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 3THX _atom_sites.fract_transf_matrix[1][1] 0.014899 _atom_sites.fract_transf_matrix[1][2] -0.004595 _atom_sites.fract_transf_matrix[1][3] 0.000884 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011432 _atom_sites.fract_transf_matrix[2][3] -0.004638 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.011312 _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 E 5 ADP A 1 935 1 ADP ADP . F 6 NA B 1 1 1 NA NA . G 7 HOH A 1 936 14 HOH HOH . G 7 HOH A 2 937 15 HOH HOH . G 7 HOH A 3 938 19 HOH HOH . G 7 HOH A 4 939 20 HOH HOH . G 7 HOH A 5 940 23 HOH HOH . G 7 HOH A 6 941 24 HOH HOH . G 7 HOH A 7 942 25 HOH HOH . G 7 HOH A 8 943 27 HOH HOH . H 7 HOH B 1 2 2 HOH HOH . H 7 HOH B 2 3 3 HOH HOH . H 7 HOH B 3 4 4 HOH HOH . H 7 HOH B 4 5 5 HOH HOH . H 7 HOH B 5 6 6 HOH HOH . H 7 HOH B 6 7 7 HOH HOH . H 7 HOH B 7 8 8 HOH HOH . H 7 HOH B 8 9 9 HOH HOH . H 7 HOH B 9 10 10 HOH HOH . H 7 HOH B 10 11 11 HOH HOH . H 7 HOH B 11 12 12 HOH HOH . H 7 HOH B 12 13 13 HOH HOH . H 7 HOH B 13 16 16 HOH HOH . H 7 HOH B 14 17 17 HOH HOH . H 7 HOH B 15 18 18 HOH HOH . H 7 HOH B 16 22 22 HOH HOH . H 7 HOH B 17 26 26 HOH HOH . H 7 HOH B 18 28 28 HOH HOH . H 7 HOH B 19 1126 1 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 6 _atom_site.Cartn_x 14.375 _atom_site.Cartn_y 39.563 _atom_site.Cartn_z -7.256 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 95.77 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 1 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 912 _model_server_stats.encode_time_ms 26 _model_server_stats.element_count 1 #