data_5L8Z # _model_server_result.job_id PhhBXPFV2XW5drP2VzI05w _model_server_result.datetime_utc '2025-06-13 04:37:52' _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 5l8z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":101}' # _entry.id 5L8Z # _exptl.entry_id 5L8Z _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 2 _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 108.36 _cell.angle_gamma 90 _cell.entry_id 5L8Z _cell.length_a 57 _cell.length_b 39.01 _cell.length_c 38.78 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5L8Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 metalc ? metalc1 A OG1 THR 23 A THR 21 1_555 B NA NA . A NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.818 ? metalc ? metalc2 B NA NA . A NA 101 1_555 C O HOH . A HOH 225 4_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.716 ? metalc ? metalc3 B NA NA . A NA 101 1_555 C O HOH . A HOH 235 4_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? # _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 5L8Z _atom_sites.fract_transf_matrix[1][1] 0.017544 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005822 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025634 _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] 0.027169 _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 NA A 1 101 1 NA NA . C 3 HOH A 1 201 81 HOH HOH . C 3 HOH A 2 202 101 HOH HOH . C 3 HOH A 3 203 12 HOH HOH . C 3 HOH A 4 204 59 HOH HOH . C 3 HOH A 5 205 64 HOH HOH . C 3 HOH A 6 206 85 HOH HOH . C 3 HOH A 7 207 55 HOH HOH . C 3 HOH A 8 208 102 HOH HOH . C 3 HOH A 9 209 43 HOH HOH . C 3 HOH A 10 210 98 HOH HOH . C 3 HOH A 11 211 44 HOH HOH . C 3 HOH A 12 212 18 HOH HOH . C 3 HOH A 13 213 129 HOH HOH . C 3 HOH A 14 214 70 HOH HOH . C 3 HOH A 15 215 41 HOH HOH . C 3 HOH A 16 216 30 HOH HOH . C 3 HOH A 17 217 11 HOH HOH . C 3 HOH A 18 218 87 HOH HOH . C 3 HOH A 19 219 117 HOH HOH . C 3 HOH A 20 220 82 HOH HOH . C 3 HOH A 21 221 120 HOH HOH . C 3 HOH A 22 222 95 HOH HOH . C 3 HOH A 23 223 7 HOH HOH . C 3 HOH A 24 224 48 HOH HOH . C 3 HOH A 25 225 78 HOH HOH . C 3 HOH A 26 226 62 HOH HOH . C 3 HOH A 27 227 27 HOH HOH . C 3 HOH A 28 228 88 HOH HOH . C 3 HOH A 29 229 121 HOH HOH . C 3 HOH A 30 230 29 HOH HOH . C 3 HOH A 31 231 69 HOH HOH . C 3 HOH A 32 232 127 HOH HOH . C 3 HOH A 33 233 14 HOH HOH . C 3 HOH A 34 234 91 HOH HOH . C 3 HOH A 35 235 6 HOH HOH . C 3 HOH A 36 236 2 HOH HOH . C 3 HOH A 37 237 86 HOH HOH . C 3 HOH A 38 238 36 HOH HOH . C 3 HOH A 39 239 92 HOH HOH . C 3 HOH A 40 240 4 HOH HOH . C 3 HOH A 41 241 21 HOH HOH . C 3 HOH A 42 242 9 HOH HOH . C 3 HOH A 43 243 105 HOH HOH . C 3 HOH A 44 244 99 HOH HOH . C 3 HOH A 45 245 66 HOH HOH . C 3 HOH A 46 246 10 HOH HOH . C 3 HOH A 47 247 103 HOH HOH . C 3 HOH A 48 248 15 HOH HOH . C 3 HOH A 49 249 67 HOH HOH . C 3 HOH A 50 250 26 HOH HOH . C 3 HOH A 51 251 76 HOH HOH . C 3 HOH A 52 252 89 HOH HOH . C 3 HOH A 53 253 24 HOH HOH . C 3 HOH A 54 254 3 HOH HOH . C 3 HOH A 55 255 61 HOH HOH . C 3 HOH A 56 256 34 HOH HOH . C 3 HOH A 57 257 77 HOH HOH . C 3 HOH A 58 258 46 HOH HOH . C 3 HOH A 59 259 113 HOH HOH . C 3 HOH A 60 260 32 HOH HOH . C 3 HOH A 61 261 8 HOH HOH . C 3 HOH A 62 262 42 HOH HOH . C 3 HOH A 63 263 20 HOH HOH . C 3 HOH A 64 264 13 HOH HOH . C 3 HOH A 65 265 111 HOH HOH . C 3 HOH A 66 266 71 HOH HOH . C 3 HOH A 67 267 83 HOH HOH . C 3 HOH A 68 268 37 HOH HOH . C 3 HOH A 69 269 23 HOH HOH . C 3 HOH A 70 270 63 HOH HOH . C 3 HOH A 71 271 45 HOH HOH . C 3 HOH A 72 272 19 HOH HOH . C 3 HOH A 73 273 104 HOH HOH . C 3 HOH A 74 274 28 HOH HOH . C 3 HOH A 75 275 25 HOH HOH . C 3 HOH A 76 276 40 HOH HOH . C 3 HOH A 77 277 56 HOH HOH . C 3 HOH A 78 278 126 HOH HOH . C 3 HOH A 79 279 110 HOH HOH . C 3 HOH A 80 280 90 HOH HOH . C 3 HOH A 81 281 75 HOH HOH . C 3 HOH A 82 282 93 HOH HOH . C 3 HOH A 83 283 57 HOH HOH . C 3 HOH A 84 284 52 HOH HOH . C 3 HOH A 85 285 39 HOH HOH . C 3 HOH A 86 286 16 HOH HOH . C 3 HOH A 87 287 38 HOH HOH . C 3 HOH A 88 288 49 HOH HOH . C 3 HOH A 89 289 47 HOH HOH . C 3 HOH A 90 290 5 HOH HOH . C 3 HOH A 91 291 96 HOH HOH . C 3 HOH A 92 292 31 HOH HOH . C 3 HOH A 93 293 17 HOH HOH . C 3 HOH A 94 294 22 HOH HOH . C 3 HOH A 95 295 33 HOH HOH . C 3 HOH A 96 296 60 HOH HOH . C 3 HOH A 97 297 54 HOH HOH . C 3 HOH A 98 298 122 HOH HOH . C 3 HOH A 99 299 116 HOH HOH . C 3 HOH A 100 300 123 HOH HOH . C 3 HOH A 101 301 109 HOH HOH . C 3 HOH A 102 302 80 HOH HOH . C 3 HOH A 103 303 35 HOH HOH . C 3 HOH A 104 304 53 HOH HOH . C 3 HOH A 105 305 112 HOH HOH . C 3 HOH A 106 306 107 HOH HOH . C 3 HOH A 107 307 108 HOH HOH . C 3 HOH A 108 308 124 HOH HOH . C 3 HOH A 109 309 100 HOH HOH . C 3 HOH A 110 310 97 HOH HOH . C 3 HOH A 111 311 94 HOH HOH . C 3 HOH A 112 312 125 HOH HOH . C 3 HOH A 113 313 58 HOH HOH . C 3 HOH A 114 314 72 HOH HOH . C 3 HOH A 115 315 128 HOH HOH . C 3 HOH A 116 316 84 HOH HOH . C 3 HOH A 117 317 118 HOH HOH . C 3 HOH A 118 318 50 HOH HOH . C 3 HOH A 119 319 74 HOH HOH . C 3 HOH A 120 320 119 HOH HOH . C 3 HOH A 121 321 51 HOH HOH . C 3 HOH A 122 322 106 HOH HOH . C 3 HOH A 123 323 65 HOH HOH . C 3 HOH A 124 324 114 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 B _atom_site.label_entity_id 2 _atom_site.Cartn_x 10.503 _atom_site.Cartn_y -22.804 _atom_site.Cartn_z -3.3 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 17.06 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 101 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #