data_2POD # _model_server_result.job_id ErpRzfoLfSBTfdRbHkoQoA _model_server_result.datetime_utc '2024-11-05 01:14:20' _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 2pod # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":409}' # _entry.id 2POD # _exptl.entry_id 2POD _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 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 90 _cell.entry_id 2POD _cell.length_a 146.771 _cell.length_b 146.771 _cell.length_c 85.531 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2POD _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D 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 covale ? covale1 A C GLU 82 A GLU 80 1_555 A N MSE 83 A MSE 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale2 A C MSE 83 A MSE 81 1_555 A N ARG 84 A ARG 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale3 A C ALA 174 A ALA 172 1_555 A N MSE 175 A MSE 173 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 A C MSE 175 A MSE 173 1_555 A N LYS 176 A LYS 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale5 A C LYS 214 A LYS 212 1_555 A N MSE 215 A MSE 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale6 A C MSE 215 A MSE 213 1_555 A N ASP 216 A ASP 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale7 A C VAL 217 A VAL 215 1_555 A N MSE 218 A MSE 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale8 A C MSE 218 A MSE 216 1_555 A N VAL 219 A VAL 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale9 A C ARG 250 A ARG 248 1_555 A N MSE 251 A MSE 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale10 A C MSE 251 A MSE 249 1_555 A N ASP 252 A ASP 250 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale11 A C VAL 292 A VAL 290 1_555 A N MSE 293 A MSE 291 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale12 A C MSE 293 A MSE 291 1_555 A N LEU 294 A LEU 292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale13 A C SER 310 A SER 308 1_555 A N MSE 311 A MSE 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale14 A C MSE 311 A MSE 309 1_555 A N ALA 312 A ALA 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale15 A C LEU 384 A LEU 382 1_555 A N MSE 385 A MSE 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale16 A C MSE 385 A MSE 383 1_555 A N PRO 386 A PRO 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.354 ? covale ? covale17 B C GLU 82 B GLU 80 1_555 B N MSE 83 B MSE 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale18 B C MSE 83 B MSE 81 1_555 B N ARG 84 B ARG 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale19 B C ALA 174 B ALA 172 1_555 B N MSE 175 B MSE 173 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale20 B C MSE 175 B MSE 173 1_555 B N LYS 176 B LYS 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale21 B C LYS 214 B LYS 212 1_555 B N MSE 215 B MSE 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale22 B C MSE 215 B MSE 213 1_555 B N ASP 216 B ASP 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale23 B C VAL 217 B VAL 215 1_555 B N MSE 218 B MSE 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale24 B C MSE 218 B MSE 216 1_555 B N VAL 219 B VAL 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale25 B C ARG 250 B ARG 248 1_555 B N MSE 251 B MSE 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale26 B C MSE 251 B MSE 249 1_555 B N ASP 252 B ASP 250 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale27 B C VAL 292 B VAL 290 1_555 B N MSE 293 B MSE 291 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale28 B C MSE 293 B MSE 291 1_555 B N LEU 294 B LEU 292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale29 B C SER 310 B SER 308 1_555 B N MSE 311 B MSE 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale30 B C MSE 311 B MSE 309 1_555 B N ALA 312 B ALA 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale31 B C LEU 384 B LEU 382 1_555 B N MSE 385 B MSE 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale32 B C MSE 385 B MSE 383 1_555 B N PRO 386 B PRO 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? metalc ? metalc1 A OE1 GLU 220 A GLU 218 1_555 C NA NA . A NA 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc2 A OE2 GLU 246 A GLU 244 1_555 C NA NA . A NA 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.201 ? metalc ? metalc3 A OE2 GLU 272 A GLU 270 1_555 C NA NA . A NA 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc4 B OE1 GLU 220 B GLU 218 1_555 D NA NA . B NA 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? metalc ? metalc5 B OE2 GLU 246 B GLU 244 1_555 D NA NA . B NA 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.651 ? metalc ? metalc6 B OE2 GLU 272 B GLU 270 1_555 D NA NA . B NA 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? # _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 2POD _atom_sites.fract_transf_matrix[1][1] 0.006813 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006813 _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] 0.011692 _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 2 NA A 1 409 1 NA NA . D 2 NA B 1 409 2 NA NA . E 3 HOH A 1 410 7 HOH HOH . E 3 HOH A 2 411 8 HOH HOH . E 3 HOH A 3 412 9 HOH HOH . E 3 HOH A 4 413 12 HOH HOH . E 3 HOH A 5 414 15 HOH HOH . E 3 HOH A 6 415 16 HOH HOH . E 3 HOH A 7 416 17 HOH HOH . E 3 HOH A 8 417 18 HOH HOH . E 3 HOH A 9 418 19 HOH HOH . E 3 HOH A 10 419 20 HOH HOH . E 3 HOH A 11 420 21 HOH HOH . E 3 HOH A 12 421 24 HOH HOH . E 3 HOH A 13 422 26 HOH HOH . E 3 HOH A 14 423 28 HOH HOH . E 3 HOH A 15 424 31 HOH HOH . E 3 HOH A 16 425 32 HOH HOH . E 3 HOH A 17 426 35 HOH HOH . E 3 HOH A 18 427 36 HOH HOH . E 3 HOH A 19 428 40 HOH HOH . E 3 HOH A 20 429 41 HOH HOH . E 3 HOH A 21 430 42 HOH HOH . E 3 HOH A 22 431 43 HOH HOH . E 3 HOH A 23 432 44 HOH HOH . E 3 HOH A 24 433 46 HOH HOH . E 3 HOH A 25 434 50 HOH HOH . E 3 HOH A 26 435 51 HOH HOH . E 3 HOH A 27 436 55 HOH HOH . E 3 HOH A 28 437 57 HOH HOH . E 3 HOH A 29 438 58 HOH HOH . E 3 HOH A 30 439 59 HOH HOH . E 3 HOH A 31 440 60 HOH HOH . E 3 HOH A 32 441 62 HOH HOH . E 3 HOH A 33 442 66 HOH HOH . E 3 HOH A 34 443 68 HOH HOH . E 3 HOH A 35 444 69 HOH HOH . E 3 HOH A 36 445 70 HOH HOH . E 3 HOH A 37 446 71 HOH HOH . E 3 HOH A 38 447 72 HOH HOH . E 3 HOH A 39 448 73 HOH HOH . E 3 HOH A 40 449 74 HOH HOH . E 3 HOH A 41 450 75 HOH HOH . E 3 HOH A 42 451 77 HOH HOH . E 3 HOH A 43 452 81 HOH HOH . E 3 HOH A 44 453 82 HOH HOH . E 3 HOH A 45 454 83 HOH HOH . E 3 HOH A 46 455 84 HOH HOH . E 3 HOH A 47 456 85 HOH HOH . E 3 HOH A 48 457 86 HOH HOH . E 3 HOH A 49 458 87 HOH HOH . E 3 HOH A 50 459 88 HOH HOH . E 3 HOH A 51 460 89 HOH HOH . E 3 HOH A 52 461 90 HOH HOH . E 3 HOH A 53 462 91 HOH HOH . E 3 HOH A 54 463 92 HOH HOH . E 3 HOH A 55 464 98 HOH HOH . E 3 HOH A 56 465 99 HOH HOH . E 3 HOH A 57 466 101 HOH HOH . E 3 HOH A 58 467 102 HOH HOH . E 3 HOH A 59 468 103 HOH HOH . E 3 HOH A 60 469 104 HOH HOH . E 3 HOH A 61 470 107 HOH HOH . E 3 HOH A 62 471 108 HOH HOH . E 3 HOH A 63 472 111 HOH HOH . E 3 HOH A 64 473 114 HOH HOH . E 3 HOH A 65 474 115 HOH HOH . E 3 HOH A 66 475 116 HOH HOH . E 3 HOH A 67 476 120 HOH HOH . E 3 HOH A 68 477 122 HOH HOH . E 3 HOH A 69 478 125 HOH HOH . E 3 HOH A 70 479 126 HOH HOH . E 3 HOH A 71 480 127 HOH HOH . E 3 HOH A 72 481 128 HOH HOH . E 3 HOH A 73 482 129 HOH HOH . E 3 HOH A 74 483 130 HOH HOH . E 3 HOH A 75 484 131 HOH HOH . E 3 HOH A 76 485 132 HOH HOH . E 3 HOH A 77 486 133 HOH HOH . E 3 HOH A 78 487 134 HOH HOH . E 3 HOH A 79 488 135 HOH HOH . E 3 HOH A 80 489 136 HOH HOH . E 3 HOH A 81 490 137 HOH HOH . E 3 HOH A 82 491 138 HOH HOH . E 3 HOH A 83 492 139 HOH HOH . E 3 HOH A 84 493 140 HOH HOH . E 3 HOH A 85 494 141 HOH HOH . E 3 HOH A 86 495 152 HOH HOH . E 3 HOH A 87 496 153 HOH HOH . E 3 HOH A 88 497 154 HOH HOH . F 3 HOH B 1 410 3 HOH HOH . F 3 HOH B 2 411 4 HOH HOH . F 3 HOH B 3 412 5 HOH HOH . F 3 HOH B 4 413 6 HOH HOH . F 3 HOH B 5 414 10 HOH HOH . F 3 HOH B 6 415 11 HOH HOH . F 3 HOH B 7 416 13 HOH HOH . F 3 HOH B 8 417 14 HOH HOH . F 3 HOH B 9 418 22 HOH HOH . F 3 HOH B 10 419 23 HOH HOH . F 3 HOH B 11 420 25 HOH HOH . F 3 HOH B 12 421 27 HOH HOH . F 3 HOH B 13 422 29 HOH HOH . F 3 HOH B 14 423 30 HOH HOH . F 3 HOH B 15 424 33 HOH HOH . F 3 HOH B 16 425 34 HOH HOH . F 3 HOH B 17 426 37 HOH HOH . F 3 HOH B 18 427 38 HOH HOH . F 3 HOH B 19 428 39 HOH HOH . F 3 HOH B 20 429 45 HOH HOH . F 3 HOH B 21 430 47 HOH HOH . F 3 HOH B 22 431 48 HOH HOH . F 3 HOH B 23 432 49 HOH HOH . F 3 HOH B 24 433 52 HOH HOH . F 3 HOH B 25 434 53 HOH HOH . F 3 HOH B 26 435 54 HOH HOH . F 3 HOH B 27 436 56 HOH HOH . F 3 HOH B 28 437 61 HOH HOH . F 3 HOH B 29 438 63 HOH HOH . F 3 HOH B 30 439 64 HOH HOH . F 3 HOH B 31 440 65 HOH HOH . F 3 HOH B 32 441 67 HOH HOH . F 3 HOH B 33 442 76 HOH HOH . F 3 HOH B 34 443 78 HOH HOH . F 3 HOH B 35 444 79 HOH HOH . F 3 HOH B 36 445 80 HOH HOH . F 3 HOH B 37 446 93 HOH HOH . F 3 HOH B 38 447 94 HOH HOH . F 3 HOH B 39 448 95 HOH HOH . F 3 HOH B 40 449 96 HOH HOH . F 3 HOH B 41 450 97 HOH HOH . F 3 HOH B 42 451 100 HOH HOH . F 3 HOH B 43 452 105 HOH HOH . F 3 HOH B 44 453 106 HOH HOH . F 3 HOH B 45 454 109 HOH HOH . F 3 HOH B 46 455 110 HOH HOH . F 3 HOH B 47 456 112 HOH HOH . F 3 HOH B 48 457 113 HOH HOH . F 3 HOH B 49 458 117 HOH HOH . F 3 HOH B 50 459 118 HOH HOH . F 3 HOH B 51 460 119 HOH HOH . F 3 HOH B 52 461 121 HOH HOH . F 3 HOH B 53 462 123 HOH HOH . F 3 HOH B 54 463 124 HOH HOH . F 3 HOH B 55 464 142 HOH HOH . F 3 HOH B 56 465 143 HOH HOH . F 3 HOH B 57 466 144 HOH HOH . F 3 HOH B 58 467 145 HOH HOH . F 3 HOH B 59 468 146 HOH HOH . F 3 HOH B 60 469 147 HOH HOH . F 3 HOH B 61 470 148 HOH HOH . F 3 HOH B 62 471 149 HOH HOH . F 3 HOH B 63 472 150 HOH HOH . F 3 HOH B 64 473 151 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 2 _atom_site.Cartn_x -19.917 _atom_site.Cartn_y 20.146 _atom_site.Cartn_z 57.611 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 66.65 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 409 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 1 #