data_5JDS # _model_server_result.job_id UoxT-EeRPTkQokf91FtApg _model_server_result.datetime_utc '2024-12-02 09:18:20' _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 5jds # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 5JDS # _exptl.entry_id 5JDS _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 2 _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 5JDS _cell.length_a 83.13 _cell.length_b 83.13 _cell.length_c 73.23 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JDS _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _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,I,J _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 H 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 disulf ? disulf1 A SG CYS 24 B CYS 22 1_555 A SG CYS 98 B CYS 96 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.081 ? disulf ? disulf2 A SG CYS 24 B CYS 22 1_555 A SG CYS 98 B CYS 96 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.993 ? disulf ? disulf3 A SG CYS 35 B CYS 33 1_555 A SG CYS 108 B CYS 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 B SG CYS 24 A CYS 40 1_555 B SG CYS 98 A CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? metalc ? metalc1 C NA NA . B NA 201 1_555 I O HOH . B HOH 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.03 ? # _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 5JDS _atom_sites.fract_transf_matrix[1][1] 0.012029 _atom_sites.fract_transf_matrix[1][2] 0.006945 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01389 _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] 0.013656 _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 NA B 1 201 1 NA NA . D 4 CL B 1 202 1 CL CL . E 4 CL B 1 203 1 CL CL . F 4 CL B 1 204 1 CL CL . G 5 SO4 A 1 201 1 SO4 SO4 . H 3 NA A 1 202 1 NA NA . I 6 HOH B 1 301 181 HOH HOH . I 6 HOH B 2 302 174 HOH HOH . I 6 HOH B 3 303 107 HOH HOH . I 6 HOH B 4 304 148 HOH HOH . I 6 HOH B 5 305 19 HOH HOH . I 6 HOH B 6 306 154 HOH HOH . I 6 HOH B 7 307 8 HOH HOH . I 6 HOH B 8 308 130 HOH HOH . I 6 HOH B 9 309 81 HOH HOH . I 6 HOH B 10 310 72 HOH HOH . I 6 HOH B 11 311 14 HOH HOH . I 6 HOH B 12 312 143 HOH HOH . I 6 HOH B 13 313 21 HOH HOH . I 6 HOH B 14 314 127 HOH HOH . I 6 HOH B 15 315 71 HOH HOH . I 6 HOH B 16 316 65 HOH HOH . I 6 HOH B 17 317 133 HOH HOH . I 6 HOH B 18 318 183 HOH HOH . I 6 HOH B 19 319 77 HOH HOH . I 6 HOH B 20 320 125 HOH HOH . I 6 HOH B 21 321 28 HOH HOH . I 6 HOH B 22 322 87 HOH HOH . I 6 HOH B 23 323 66 HOH HOH . I 6 HOH B 24 324 114 HOH HOH . I 6 HOH B 25 325 67 HOH HOH . I 6 HOH B 26 326 168 HOH HOH . I 6 HOH B 27 327 46 HOH HOH . I 6 HOH B 28 328 109 HOH HOH . I 6 HOH B 29 329 15 HOH HOH . I 6 HOH B 30 330 22 HOH HOH . I 6 HOH B 31 331 57 HOH HOH . I 6 HOH B 32 332 4 HOH HOH . I 6 HOH B 33 333 16 HOH HOH . I 6 HOH B 34 334 141 HOH HOH . I 6 HOH B 35 335 108 HOH HOH . I 6 HOH B 36 336 38 HOH HOH . I 6 HOH B 37 337 140 HOH HOH . I 6 HOH B 38 338 92 HOH HOH . I 6 HOH B 39 339 123 HOH HOH . I 6 HOH B 40 340 158 HOH HOH . I 6 HOH B 41 341 43 HOH HOH . I 6 HOH B 42 342 34 HOH HOH . I 6 HOH B 43 343 106 HOH HOH . I 6 HOH B 44 344 104 HOH HOH . I 6 HOH B 45 345 166 HOH HOH . I 6 HOH B 46 346 101 HOH HOH . I 6 HOH B 47 347 157 HOH HOH . I 6 HOH B 48 348 110 HOH HOH . I 6 HOH B 49 349 121 HOH HOH . I 6 HOH B 50 350 10 HOH HOH . I 6 HOH B 51 351 144 HOH HOH . I 6 HOH B 52 352 74 HOH HOH . I 6 HOH B 53 353 137 HOH HOH . I 6 HOH B 54 354 116 HOH HOH . I 6 HOH B 55 355 94 HOH HOH . I 6 HOH B 56 356 180 HOH HOH . I 6 HOH B 57 357 147 HOH HOH . I 6 HOH B 58 358 32 HOH HOH . I 6 HOH B 59 359 142 HOH HOH . I 6 HOH B 60 360 13 HOH HOH . I 6 HOH B 61 361 170 HOH HOH . I 6 HOH B 62 362 113 HOH HOH . I 6 HOH B 63 363 60 HOH HOH . I 6 HOH B 64 364 47 HOH HOH . I 6 HOH B 65 365 45 HOH HOH . I 6 HOH B 66 366 91 HOH HOH . I 6 HOH B 67 367 11 HOH HOH . I 6 HOH B 68 368 69 HOH HOH . I 6 HOH B 69 369 175 HOH HOH . I 6 HOH B 70 370 105 HOH HOH . I 6 HOH B 71 371 93 HOH HOH . I 6 HOH B 72 372 73 HOH HOH . I 6 HOH B 73 373 51 HOH HOH . I 6 HOH B 74 374 39 HOH HOH . I 6 HOH B 75 375 90 HOH HOH . I 6 HOH B 76 376 97 HOH HOH . I 6 HOH B 77 377 176 HOH HOH . I 6 HOH B 78 378 78 HOH HOH . I 6 HOH B 79 379 136 HOH HOH . I 6 HOH B 80 380 135 HOH HOH . I 6 HOH B 81 381 99 HOH HOH . I 6 HOH B 82 382 149 HOH HOH . I 6 HOH B 83 383 96 HOH HOH . J 6 HOH A 1 301 131 HOH HOH . J 6 HOH A 2 302 59 HOH HOH . J 6 HOH A 3 303 1 HOH HOH . J 6 HOH A 4 304 120 HOH HOH . J 6 HOH A 5 305 182 HOH HOH . J 6 HOH A 6 306 159 HOH HOH . J 6 HOH A 7 307 31 HOH HOH . J 6 HOH A 8 308 49 HOH HOH . J 6 HOH A 9 309 152 HOH HOH . J 6 HOH A 10 310 50 HOH HOH . J 6 HOH A 11 311 115 HOH HOH . J 6 HOH A 12 312 68 HOH HOH . J 6 HOH A 13 313 23 HOH HOH . J 6 HOH A 14 314 58 HOH HOH . J 6 HOH A 15 315 53 HOH HOH . J 6 HOH A 16 316 138 HOH HOH . J 6 HOH A 17 317 95 HOH HOH . J 6 HOH A 18 318 76 HOH HOH . J 6 HOH A 19 319 146 HOH HOH . J 6 HOH A 20 320 30 HOH HOH . J 6 HOH A 21 321 89 HOH HOH . J 6 HOH A 22 322 126 HOH HOH . J 6 HOH A 23 323 145 HOH HOH . J 6 HOH A 24 324 171 HOH HOH . J 6 HOH A 25 325 54 HOH HOH . J 6 HOH A 26 326 112 HOH HOH . J 6 HOH A 27 327 2 HOH HOH . J 6 HOH A 28 328 24 HOH HOH . J 6 HOH A 29 329 153 HOH HOH . J 6 HOH A 30 330 48 HOH HOH . J 6 HOH A 31 331 26 HOH HOH . J 6 HOH A 32 332 12 HOH HOH . J 6 HOH A 33 333 100 HOH HOH . J 6 HOH A 34 334 156 HOH HOH . J 6 HOH A 35 335 7 HOH HOH . J 6 HOH A 36 336 5 HOH HOH . J 6 HOH A 37 337 70 HOH HOH . J 6 HOH A 38 338 3 HOH HOH . J 6 HOH A 39 339 42 HOH HOH . J 6 HOH A 40 340 119 HOH HOH . J 6 HOH A 41 341 151 HOH HOH . J 6 HOH A 42 342 55 HOH HOH . J 6 HOH A 43 343 83 HOH HOH . J 6 HOH A 44 344 117 HOH HOH . J 6 HOH A 45 345 102 HOH HOH . J 6 HOH A 46 346 111 HOH HOH . J 6 HOH A 47 347 44 HOH HOH . J 6 HOH A 48 348 173 HOH HOH . J 6 HOH A 49 349 52 HOH HOH . J 6 HOH A 50 350 6 HOH HOH . J 6 HOH A 51 351 139 HOH HOH . J 6 HOH A 52 352 56 HOH HOH . J 6 HOH A 53 353 124 HOH HOH . J 6 HOH A 54 354 61 HOH HOH . J 6 HOH A 55 355 64 HOH HOH . J 6 HOH A 56 356 98 HOH HOH . J 6 HOH A 57 357 122 HOH HOH . J 6 HOH A 58 358 41 HOH HOH . J 6 HOH A 59 359 118 HOH HOH . J 6 HOH A 60 360 40 HOH HOH . J 6 HOH A 61 361 82 HOH HOH . J 6 HOH A 62 362 35 HOH HOH . J 6 HOH A 63 363 132 HOH HOH . J 6 HOH A 64 364 27 HOH HOH . J 6 HOH A 65 365 62 HOH HOH . J 6 HOH A 66 366 37 HOH HOH . J 6 HOH A 67 367 63 HOH HOH . J 6 HOH A 68 368 177 HOH HOH . J 6 HOH A 69 369 172 HOH HOH . J 6 HOH A 70 370 103 HOH HOH . J 6 HOH A 71 371 17 HOH HOH . J 6 HOH A 72 372 129 HOH HOH . J 6 HOH A 73 373 155 HOH HOH . J 6 HOH A 74 374 79 HOH HOH . J 6 HOH A 75 375 86 HOH HOH . J 6 HOH A 76 376 128 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 C _atom_site.label_entity_id 3 _atom_site.Cartn_x -4.618 _atom_site.Cartn_y -51.923 _atom_site.Cartn_z -13.118 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 52.27 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 201 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #