data_8K0V # _model_server_result.job_id 64eGU3T77J8P8ECvNDJU1A _model_server_result.datetime_utc '2025-07-06 15:37:17' _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 8k0v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":103}' # _entry.id 8K0V # _exptl.entry_id 8K0V _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 4 _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 120 _cell.entry_id 8K0V _cell.length_a 49.292 _cell.length_b 49.292 _cell.length_c 50.96 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8K0V _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall 'P 32 2"' _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 3 C N N ? 3 D N N ? 3 E N N ? 3 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 metalc ? metalc1 A O6 DG 4 A DG 4 1_555 C NA NA . A NA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc2 A OP1 DA 17 A DA 17 1_555 E NA NA . A NA 104 3_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc3 A OP1 DG 21 A DG 21 1_555 E NA NA . A NA 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc4 A OP2 DT 22 A DT 22 1_555 E NA NA . A NA 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? metalc ? metalc5 C NA NA . A NA 102 1_555 G O HOH . A HOH 210 6_554 ? ? ? ? ? ? ? ? ? ? ? ? 1.938 ? metalc ? metalc6 C NA NA . A NA 102 1_555 G O HOH . A HOH 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.699 ? metalc ? metalc7 C NA NA . A NA 102 1_555 G O HOH . A HOH 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? metalc ? metalc8 D NA NA . A NA 103 1_555 G O HOH . A HOH 204 4_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc9 D NA NA . A NA 103 1_555 G O HOH . A HOH 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc10 E NA NA . A NA 104 1_555 G O HOH . A HOH 216 2_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc11 E NA NA . A NA 104 1_555 G O HOH . A HOH 219 2_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc12 E NA NA . A NA 104 1_555 G O HOH . A HOH 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc13 F NA NA . A NA 105 1_555 G O HOH . A HOH 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc14 F NA NA . A NA 105 1_555 G O HOH . A HOH 221 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.684 ? metalc ? metalc15 F NA NA . A NA 105 1_555 G O HOH . A HOH 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.393 ? metalc ? metalc16 F NA NA . A NA 105 1_555 G O HOH . A HOH 231 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.596 ? metalc ? metalc17 F NA NA . A NA 105 1_555 G O HOH . A HOH 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? hydrog WATSON-CRICK hydrog1 A N1 DG 1 A DG 1 1_555 A N3 DC 29 A DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 1 A DG 1 1_555 A O2 DC 29 A DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 1 A DG 1 1_555 A N4 DC 29 A DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 DC 2 A DC 2 1_555 A N1 DG 28 A DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N4 DC 2 A DC 2 1_555 A O6 DG 28 A DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O2 DC 2 A DC 2 1_555 A N2 DG 28 A DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N1 DG 3 A DG 3 1_555 A N3 DC 27 A DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N2 DG 3 A DG 3 1_555 A O2 DC 27 A DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O6 DG 3 A DG 3 1_555 A N4 DC 27 A DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N1 DG 4 A DG 4 1_555 A N3 DC 26 A DC 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N2 DG 4 A DG 4 1_555 A O2 DC 26 A DC 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O6 DG 4 A DG 4 1_555 A N4 DC 26 A DC 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog13 A N3 DT 5 A DT 5 1_555 A O6 DG 25 A DG 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog14 A O2 DT 5 A DT 5 1_555 A N1 DG 25 A DG 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_7_PAIR hydrog15 A N7 DG 6 A DG 6 1_555 A N1 DG 19 A DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_7_PAIR hydrog16 A O6 DG 6 A DG 6 1_555 A N2 DG 19 A DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N1 DG 6 A DG 6 1_555 A N3 DC 24 A DC 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N2 DG 6 A DG 6 1_555 A O2 DC 24 A DC 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O6 DG 6 A DG 6 1_555 A N4 DC 24 A DC 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_7_PAIR hydrog20 A N7 DG 7 A DG 7 1_555 A N1 DG 18 A DG 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_7_PAIR hydrog21 A O6 DG 7 A DG 7 1_555 A N2 DG 18 A DG 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N1 DG 7 A DG 7 1_555 A N3 DC 23 A DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N2 DG 7 A DG 7 1_555 A O2 DC 23 A DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A O6 DG 7 A DG 7 1_555 A N4 DC 23 A DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N3 DC 9 A DC 9 1_555 A N1 DG 21 A DG 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A N4 DC 9 A DC 9 1_555 A O6 DG 21 A DG 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A O2 DC 9 A DC 9 1_555 A N2 DG 21 A DG 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A N1 DA 11 A DA 11 1_555 A N3 DT 16 A DT 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 A N6 DA 11 A DA 11 1_555 A O4 DT 16 A DT 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog HOOGSTEEN hydrog30 A N3 DT 12 A DT 12 1_555 A N7 DA 15 A DA 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog HOOGSTEEN hydrog31 A O4 DT 12 A DT 12 1_555 A N6 DA 15 A DA 15 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 8K0V _atom_sites.fract_transf_matrix[1][1] 0.020287 _atom_sites.fract_transf_matrix[1][2] 0.011713 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023426 _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] 0.019623 _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 B 2 I7U A 1 101 101 I7U 3IV . C 3 NA A 1 102 1 NA NA . D 3 NA A 1 103 2 NA NA . E 3 NA A 1 104 3 NA NA . F 3 NA A 1 105 4 NA NA . G 4 HOH A 1 201 35 HOH HOH . G 4 HOH A 2 202 2 HOH HOH . G 4 HOH A 3 203 44 HOH HOH . G 4 HOH A 4 204 29 HOH HOH . G 4 HOH A 5 205 51 HOH HOH . G 4 HOH A 6 206 47 HOH HOH . G 4 HOH A 7 207 5 HOH HOH . G 4 HOH A 8 208 25 HOH HOH . G 4 HOH A 9 209 8 HOH HOH . G 4 HOH A 10 210 53 HOH HOH . G 4 HOH A 11 211 3 HOH HOH . G 4 HOH A 12 212 18 HOH HOH . G 4 HOH A 13 213 6 HOH HOH . G 4 HOH A 14 214 22 HOH HOH . G 4 HOH A 15 215 28 HOH HOH . G 4 HOH A 16 216 1 HOH HOH . G 4 HOH A 17 217 23 HOH HOH . G 4 HOH A 18 218 11 HOH HOH . G 4 HOH A 19 219 14 HOH HOH . G 4 HOH A 20 220 15 HOH HOH . G 4 HOH A 21 221 10 HOH HOH . G 4 HOH A 22 222 4 HOH HOH . G 4 HOH A 23 223 31 HOH HOH . G 4 HOH A 24 224 19 HOH HOH . G 4 HOH A 25 225 27 HOH HOH . G 4 HOH A 26 226 7 HOH HOH . G 4 HOH A 27 227 20 HOH HOH . G 4 HOH A 28 228 13 HOH HOH . G 4 HOH A 29 229 34 HOH HOH . G 4 HOH A 30 230 37 HOH HOH . G 4 HOH A 31 231 24 HOH HOH . G 4 HOH A 32 232 50 HOH HOH . G 4 HOH A 33 233 30 HOH HOH . G 4 HOH A 34 234 46 HOH HOH . G 4 HOH A 35 235 16 HOH HOH . G 4 HOH A 36 236 12 HOH HOH . G 4 HOH A 37 237 39 HOH HOH . G 4 HOH A 38 238 17 HOH HOH . G 4 HOH A 39 239 9 HOH HOH . G 4 HOH A 40 240 41 HOH HOH . G 4 HOH A 41 241 38 HOH HOH . G 4 HOH A 42 242 33 HOH HOH . G 4 HOH A 43 243 45 HOH HOH . G 4 HOH A 44 244 52 HOH HOH . G 4 HOH A 45 245 21 HOH HOH . G 4 HOH A 46 246 26 HOH HOH . G 4 HOH A 47 247 40 HOH HOH . G 4 HOH A 48 248 48 HOH HOH . G 4 HOH A 49 249 36 HOH HOH . G 4 HOH A 50 250 32 HOH HOH . G 4 HOH A 51 251 43 HOH HOH . G 4 HOH A 52 252 49 HOH HOH . G 4 HOH A 53 253 42 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 D _atom_site.label_entity_id 3 _atom_site.Cartn_x 18.523 _atom_site.Cartn_y 0.056 _atom_site.Cartn_z -10.294 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 33.77 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 103 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 71 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #