data_3K93 # _model_server_result.job_id 5z8DFwEwS-lUTQUsKQSz6g _model_server_result.datetime_utc '2024-12-22 06:18:05' _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 3k93 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":223}' # _entry.id 3K93 # _exptl.entry_id 3K93 _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 90 _cell.angle_gamma 120 _cell.entry_id 3K93 _cell.length_a 113.369 _cell.length_b 113.369 _cell.length_c 42.284 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3K93 _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 1,2,3 # 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_665 -y+1,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 56.6845 98.180434 0 3 'crystal symmetry operation' 3_565 -x+y,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -56.6845 98.180434 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 covale ? covale1 A C GLY 1 A GLY 0 1_555 A N MSE 2 A MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.358 ? covale ? covale2 A C MSE 2 A MSE 1 1_555 A N ASN 3 A ASN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale3 A C GLU 43 A GLU 42 1_555 A N MSE 44 A MSE 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale4 A C MSE 44 A MSE 43 1_555 A N ALA 45 A ALA 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale5 A C GLN 140 A GLN 139 1_555 A N MSE 141 A MSE 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale6 A C MSE 141 A MSE 140 1_555 A N GLN 142 A GLN 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? covale ? covale7 A C TYR 144 A TYR 143 1_555 A N MSE 145 A MSE 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale8 A C MSE 145 A MSE 144 1_555 A N TRP 146 A TRP 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale9 A C GLU 221 A GLU 220 1_555 A N MSE 222 A MSE 221 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale10 A C MSE 222 A MSE 221 1_555 A N SER 223 A SER 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? metalc ? metalc1 A OD2 ASP 100 A ASP 99 1_555 B NA NA . A NA 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? metalc ? metalc2 A OD1 ASP 111 A ASP 110 1_555 B NA NA . A NA 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? metalc ? metalc3 A O THR 112 A THR 111 1_555 B NA NA . A NA 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc4 B NA NA . A NA 223 1_555 H O HOH . A HOH 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.632 ? metalc ? metalc5 B NA NA . A NA 223 1_555 H O HOH . A HOH 292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc6 B NA NA . A NA 223 1_555 H O HOH . A HOH 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.648 ? # _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 3K93 _atom_sites.fract_transf_matrix[1][1] 0.008821 _atom_sites.fract_transf_matrix[1][2] 0.005093 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010185 _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] 0.02365 _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 1 223 1 NA NA . C 3 CL A 1 224 2 CL CL . D 3 CL A 1 225 3 CL CL . E 4 GOL A 1 226 4 GOL GOL . F 5 PEG A 1 227 5 PEG PEG . G 5 PEG A 1 228 6 PEG PEG . H 6 HOH A 1 229 7 HOH HOH . H 6 HOH A 2 230 8 HOH HOH . H 6 HOH A 3 231 9 HOH HOH . H 6 HOH A 4 232 10 HOH HOH . H 6 HOH A 5 233 11 HOH HOH . H 6 HOH A 6 234 12 HOH HOH . H 6 HOH A 7 235 13 HOH HOH . H 6 HOH A 8 236 14 HOH HOH . H 6 HOH A 9 237 15 HOH HOH . H 6 HOH A 10 238 16 HOH HOH . H 6 HOH A 11 239 17 HOH HOH . H 6 HOH A 12 240 18 HOH HOH . H 6 HOH A 13 241 19 HOH HOH . H 6 HOH A 14 242 20 HOH HOH . H 6 HOH A 15 243 21 HOH HOH . H 6 HOH A 16 244 22 HOH HOH . H 6 HOH A 17 245 23 HOH HOH . H 6 HOH A 18 246 24 HOH HOH . H 6 HOH A 19 247 25 HOH HOH . H 6 HOH A 20 248 26 HOH HOH . H 6 HOH A 21 249 27 HOH HOH . H 6 HOH A 22 250 28 HOH HOH . H 6 HOH A 23 251 29 HOH HOH . H 6 HOH A 24 252 30 HOH HOH . H 6 HOH A 25 253 31 HOH HOH . H 6 HOH A 26 254 32 HOH HOH . H 6 HOH A 27 255 33 HOH HOH . H 6 HOH A 28 256 34 HOH HOH . H 6 HOH A 29 257 35 HOH HOH . H 6 HOH A 30 258 36 HOH HOH . H 6 HOH A 31 259 37 HOH HOH . H 6 HOH A 32 260 38 HOH HOH . H 6 HOH A 33 261 39 HOH HOH . H 6 HOH A 34 262 40 HOH HOH . H 6 HOH A 35 263 41 HOH HOH . H 6 HOH A 36 264 42 HOH HOH . H 6 HOH A 37 265 43 HOH HOH . H 6 HOH A 38 266 44 HOH HOH . H 6 HOH A 39 267 45 HOH HOH . H 6 HOH A 40 268 46 HOH HOH . H 6 HOH A 41 269 47 HOH HOH . H 6 HOH A 42 270 48 HOH HOH . H 6 HOH A 43 271 49 HOH HOH . H 6 HOH A 44 272 50 HOH HOH . H 6 HOH A 45 273 51 HOH HOH . H 6 HOH A 46 274 52 HOH HOH . H 6 HOH A 47 275 53 HOH HOH . H 6 HOH A 48 276 54 HOH HOH . H 6 HOH A 49 277 55 HOH HOH . H 6 HOH A 50 278 56 HOH HOH . H 6 HOH A 51 279 57 HOH HOH . H 6 HOH A 52 280 58 HOH HOH . H 6 HOH A 53 281 59 HOH HOH . H 6 HOH A 54 282 60 HOH HOH . H 6 HOH A 55 283 61 HOH HOH . H 6 HOH A 56 284 62 HOH HOH . H 6 HOH A 57 285 63 HOH HOH . H 6 HOH A 58 286 64 HOH HOH . H 6 HOH A 59 287 65 HOH HOH . H 6 HOH A 60 288 66 HOH HOH . H 6 HOH A 61 289 67 HOH HOH . H 6 HOH A 62 290 68 HOH HOH . H 6 HOH A 63 291 69 HOH HOH . H 6 HOH A 64 292 70 HOH HOH . H 6 HOH A 65 293 71 HOH HOH . H 6 HOH A 66 294 72 HOH HOH . H 6 HOH A 67 295 73 HOH HOH . H 6 HOH A 68 296 74 HOH HOH . H 6 HOH A 69 297 75 HOH HOH . H 6 HOH A 70 298 76 HOH HOH . H 6 HOH A 71 299 77 HOH HOH . H 6 HOH A 72 300 78 HOH HOH . H 6 HOH A 73 301 79 HOH HOH . H 6 HOH A 74 302 80 HOH HOH . H 6 HOH A 75 303 81 HOH HOH . H 6 HOH A 76 304 82 HOH HOH . H 6 HOH A 77 305 83 HOH HOH . H 6 HOH A 78 306 84 HOH HOH . H 6 HOH A 79 307 85 HOH HOH . H 6 HOH A 80 308 86 HOH HOH . H 6 HOH A 81 309 87 HOH HOH . H 6 HOH A 82 310 88 HOH HOH . H 6 HOH A 83 311 89 HOH HOH . H 6 HOH A 84 312 90 HOH HOH . H 6 HOH A 85 313 91 HOH HOH . H 6 HOH A 86 314 92 HOH HOH . H 6 HOH A 87 315 93 HOH HOH . H 6 HOH A 88 316 94 HOH HOH . H 6 HOH A 89 317 95 HOH HOH . H 6 HOH A 90 318 96 HOH HOH . H 6 HOH A 91 319 97 HOH HOH . H 6 HOH A 92 320 98 HOH HOH . H 6 HOH A 93 321 99 HOH HOH . H 6 HOH A 94 322 100 HOH HOH . H 6 HOH A 95 323 101 HOH HOH . H 6 HOH A 96 324 102 HOH HOH . H 6 HOH A 97 325 103 HOH HOH . H 6 HOH A 98 326 104 HOH HOH . H 6 HOH A 99 327 105 HOH HOH . H 6 HOH A 100 328 106 HOH HOH . H 6 HOH A 101 329 107 HOH HOH . H 6 HOH A 102 330 108 HOH HOH . H 6 HOH A 103 331 109 HOH HOH . H 6 HOH A 104 332 110 HOH HOH . H 6 HOH A 105 333 111 HOH HOH . H 6 HOH A 106 334 112 HOH HOH . H 6 HOH A 107 335 113 HOH HOH . H 6 HOH A 108 336 114 HOH HOH . H 6 HOH A 109 337 115 HOH HOH . H 6 HOH A 110 338 116 HOH HOH . H 6 HOH A 111 339 117 HOH HOH . H 6 HOH A 112 340 118 HOH HOH . H 6 HOH A 113 341 119 HOH HOH . H 6 HOH A 114 342 120 HOH HOH . H 6 HOH A 115 343 121 HOH HOH . H 6 HOH A 116 344 122 HOH HOH . H 6 HOH A 117 345 123 HOH HOH . H 6 HOH A 118 346 124 HOH HOH . H 6 HOH A 119 347 125 HOH HOH . H 6 HOH A 120 348 126 HOH HOH . H 6 HOH A 121 349 127 HOH HOH . H 6 HOH A 122 350 128 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 -0.621 _atom_site.Cartn_y 39.963 _atom_site.Cartn_z 14.902 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 34.38 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 223 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 68 _model_server_stats.query_time_ms 1473 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 1 #