data_5T9B
#
_model_server_result.job_id            PxsYOWRhfhq6BtaX25poAA 
_model_server_result.datetime_utc      '2024-11-01 05:27:52' 
_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          5t9b 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":303}' 
#
_entry.id    5T9B 
#
_exptl.entry_id    5T9B 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              22.99 
_entity.id                          4 
_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         90 
_cell.entry_id            5T9B 
_cell.length_a            50.463 
_cell.length_b            60.225 
_cell.length_c            88.418 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5T9B 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    'P 2ac 2ab' 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_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 OE2 GLU 45 G GLU 70 1_555 B CA CA . G CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? 
metalc ? metalc2 A OD1 ASP 47 G ASP 72 1_555 B CA CA . G CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? 
metalc ? metalc3 A O ASP 65 G ASP 90 1_555 D NA NA . G NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? 
metalc ? metalc4 A O THR 68 G THR 93 1_555 D NA NA . G NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? 
metalc ? metalc5 A OE1 GLU 127 G GLU 152 1_555 B CA CA . G CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? 
metalc ? metalc6 B CA CA . G CA 301 1_555 C O2 G3P . G G3P 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? 
metalc ? metalc7 B CA CA . G CA 301 1_555 C O1 G3P . G G3P 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? 
metalc ? metalc8 B CA CA . G CA 301 1_555 E O HOH . G HOH 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? 
metalc ? metalc9 B CA CA . G CA 301 1_555 E O HOH . G HOH 478 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? 
metalc ? metalc10 D NA NA . G NA 303 1_555 E O HOH . G HOH 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? 
metalc ? metalc11 D NA NA . G NA 303 1_555 E O HOH . G HOH 518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? 
metalc ? metalc12 D NA NA . G NA 303 1_555 E O HOH . G HOH 539 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? 
metalc ? metalc13 D NA NA . G NA 303 1_555 E O HOH . G HOH 546 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? 
#
_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                     5T9B 
_atom_sites.fract_transf_matrix[1][1]    0.019816 
_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]    0.016604 
_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]    0.01131 
_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 CA G 1 301 1 CA CA . 
C 3 G3P G 1 302 1 G3P G3P . 
D 4 NA G 1 303 1 NA NA . 
E 5 HOH G 1 401 105 HOH HOH . 
E 5 HOH G 2 402 208 HOH HOH . 
E 5 HOH G 3 403 158 HOH HOH . 
E 5 HOH G 4 404 31 HOH HOH . 
E 5 HOH G 5 405 49 HOH HOH . 
E 5 HOH G 6 406 55 HOH HOH . 
E 5 HOH G 7 407 220 HOH HOH . 
E 5 HOH G 8 408 82 HOH HOH . 
E 5 HOH G 9 409 106 HOH HOH . 
E 5 HOH G 10 410 260 HOH HOH . 
E 5 HOH G 11 411 52 HOH HOH . 
E 5 HOH G 12 412 128 HOH HOH . 
E 5 HOH G 13 413 8 HOH HOH . 
E 5 HOH G 14 414 155 HOH HOH . 
E 5 HOH G 15 415 161 HOH HOH . 
E 5 HOH G 16 416 135 HOH HOH . 
E 5 HOH G 17 417 163 HOH HOH . 
E 5 HOH G 18 418 103 HOH HOH . 
E 5 HOH G 19 419 41 HOH HOH . 
E 5 HOH G 20 420 92 HOH HOH . 
E 5 HOH G 21 421 81 HOH HOH . 
E 5 HOH G 22 422 137 HOH HOH . 
E 5 HOH G 23 423 65 HOH HOH . 
E 5 HOH G 24 424 95 HOH HOH . 
E 5 HOH G 25 425 101 HOH HOH . 
E 5 HOH G 26 426 165 HOH HOH . 
E 5 HOH G 27 427 247 HOH HOH . 
E 5 HOH G 28 428 25 HOH HOH . 
E 5 HOH G 29 429 67 HOH HOH . 
E 5 HOH G 30 430 243 HOH HOH . 
E 5 HOH G 31 431 255 HOH HOH . 
E 5 HOH G 32 432 199 HOH HOH . 
E 5 HOH G 33 433 129 HOH HOH . 
E 5 HOH G 34 434 10 HOH HOH . 
E 5 HOH G 35 435 64 HOH HOH . 
E 5 HOH G 36 436 11 HOH HOH . 
E 5 HOH G 37 437 35 HOH HOH . 
E 5 HOH G 38 438 167 HOH HOH . 
E 5 HOH G 39 439 14 HOH HOH . 
E 5 HOH G 40 440 154 HOH HOH . 
E 5 HOH G 41 441 9 HOH HOH . 
E 5 HOH G 42 442 108 HOH HOH . 
E 5 HOH G 43 443 48 HOH HOH . 
E 5 HOH G 44 444 17 HOH HOH . 
E 5 HOH G 45 445 253 HOH HOH . 
E 5 HOH G 46 446 100 HOH HOH . 
E 5 HOH G 47 447 86 HOH HOH . 
E 5 HOH G 48 448 73 HOH HOH . 
E 5 HOH G 49 449 76 HOH HOH . 
E 5 HOH G 50 450 23 HOH HOH . 
E 5 HOH G 51 451 36 HOH HOH . 
E 5 HOH G 52 452 248 HOH HOH . 
E 5 HOH G 53 453 28 HOH HOH . 
E 5 HOH G 54 454 171 HOH HOH . 
E 5 HOH G 55 455 54 HOH HOH . 
E 5 HOH G 56 456 46 HOH HOH . 
E 5 HOH G 57 457 21 HOH HOH . 
E 5 HOH G 58 458 78 HOH HOH . 
E 5 HOH G 59 459 79 HOH HOH . 
E 5 HOH G 60 460 33 HOH HOH . 
E 5 HOH G 61 461 109 HOH HOH . 
E 5 HOH G 62 462 53 HOH HOH . 
E 5 HOH G 63 463 74 HOH HOH . 
E 5 HOH G 64 464 40 HOH HOH . 
E 5 HOH G 65 465 133 HOH HOH . 
E 5 HOH G 66 466 1 HOH HOH . 
E 5 HOH G 67 467 43 HOH HOH . 
E 5 HOH G 68 468 32 HOH HOH . 
E 5 HOH G 69 469 24 HOH HOH . 
E 5 HOH G 70 470 5 HOH HOH . 
E 5 HOH G 71 471 30 HOH HOH . 
E 5 HOH G 72 472 2 HOH HOH . 
E 5 HOH G 73 473 117 HOH HOH . 
E 5 HOH G 74 474 180 HOH HOH . 
E 5 HOH G 75 475 121 HOH HOH . 
E 5 HOH G 76 476 186 HOH HOH . 
E 5 HOH G 77 477 246 HOH HOH . 
E 5 HOH G 78 478 242 HOH HOH . 
E 5 HOH G 79 479 71 HOH HOH . 
E 5 HOH G 80 480 39 HOH HOH . 
E 5 HOH G 81 481 63 HOH HOH . 
E 5 HOH G 82 482 114 HOH HOH . 
E 5 HOH G 83 483 130 HOH HOH . 
E 5 HOH G 84 484 16 HOH HOH . 
E 5 HOH G 85 485 59 HOH HOH . 
E 5 HOH G 86 486 6 HOH HOH . 
E 5 HOH G 87 487 120 HOH HOH . 
E 5 HOH G 88 488 126 HOH HOH . 
E 5 HOH G 89 489 131 HOH HOH . 
E 5 HOH G 90 490 61 HOH HOH . 
E 5 HOH G 91 491 91 HOH HOH . 
E 5 HOH G 92 492 27 HOH HOH . 
E 5 HOH G 93 493 85 HOH HOH . 
E 5 HOH G 94 494 104 HOH HOH . 
E 5 HOH G 95 495 177 HOH HOH . 
E 5 HOH G 96 496 244 HOH HOH . 
E 5 HOH G 97 497 18 HOH HOH . 
E 5 HOH G 98 498 80 HOH HOH . 
E 5 HOH G 99 499 15 HOH HOH . 
E 5 HOH G 100 500 123 HOH HOH . 
E 5 HOH G 101 501 37 HOH HOH . 
E 5 HOH G 102 502 3 HOH HOH . 
E 5 HOH G 103 503 212 HOH HOH . 
E 5 HOH G 104 504 99 HOH HOH . 
E 5 HOH G 105 505 203 HOH HOH . 
E 5 HOH G 106 506 94 HOH HOH . 
E 5 HOH G 107 507 190 HOH HOH . 
E 5 HOH G 108 508 12 HOH HOH . 
E 5 HOH G 109 509 58 HOH HOH . 
E 5 HOH G 110 510 57 HOH HOH . 
E 5 HOH G 111 511 97 HOH HOH . 
E 5 HOH G 112 512 60 HOH HOH . 
E 5 HOH G 113 513 13 HOH HOH . 
E 5 HOH G 114 514 47 HOH HOH . 
E 5 HOH G 115 515 194 HOH HOH . 
E 5 HOH G 116 516 179 HOH HOH . 
E 5 HOH G 117 517 75 HOH HOH . 
E 5 HOH G 118 518 189 HOH HOH . 
E 5 HOH G 119 519 19 HOH HOH . 
E 5 HOH G 120 520 127 HOH HOH . 
E 5 HOH G 121 521 88 HOH HOH . 
E 5 HOH G 122 522 34 HOH HOH . 
E 5 HOH G 123 523 70 HOH HOH . 
E 5 HOH G 124 524 22 HOH HOH . 
E 5 HOH G 125 525 138 HOH HOH . 
E 5 HOH G 126 526 134 HOH HOH . 
E 5 HOH G 127 527 4 HOH HOH . 
E 5 HOH G 128 528 87 HOH HOH . 
E 5 HOH G 129 529 122 HOH HOH . 
E 5 HOH G 130 530 29 HOH HOH . 
E 5 HOH G 131 531 69 HOH HOH . 
E 5 HOH G 132 532 172 HOH HOH . 
E 5 HOH G 133 533 68 HOH HOH . 
E 5 HOH G 134 534 152 HOH HOH . 
E 5 HOH G 135 535 166 HOH HOH . 
E 5 HOH G 136 536 72 HOH HOH . 
E 5 HOH G 137 537 178 HOH HOH . 
E 5 HOH G 138 538 66 HOH HOH . 
E 5 HOH G 139 539 256 HOH HOH . 
E 5 HOH G 140 540 259 HOH HOH . 
E 5 HOH G 141 541 62 HOH HOH . 
E 5 HOH G 142 542 207 HOH HOH . 
E 5 HOH G 143 543 142 HOH HOH . 
E 5 HOH G 144 544 237 HOH HOH . 
E 5 HOH G 145 545 89 HOH HOH . 
E 5 HOH G 146 546 257 HOH HOH . 
E 5 HOH G 147 547 215 HOH HOH . 
E 5 HOH G 148 548 193 HOH HOH . 
E 5 HOH G 149 549 136 HOH HOH . 
E 5 HOH G 150 550 44 HOH HOH . 
E 5 HOH G 151 551 93 HOH HOH . 
E 5 HOH G 152 552 90 HOH HOH . 
E 5 HOH G 153 553 168 HOH HOH . 
E 5 HOH G 154 554 182 HOH HOH . 
E 5 HOH G 155 555 209 HOH HOH . 
E 5 HOH G 156 556 26 HOH HOH . 
E 5 HOH G 157 557 124 HOH HOH . 
E 5 HOH G 158 558 42 HOH HOH . 
E 5 HOH G 159 559 96 HOH HOH . 
E 5 HOH G 160 560 140 HOH HOH . 
E 5 HOH G 161 561 110 HOH HOH . 
E 5 HOH G 162 562 181 HOH HOH . 
E 5 HOH G 163 563 143 HOH HOH . 
E 5 HOH G 164 564 51 HOH HOH . 
E 5 HOH G 165 565 156 HOH HOH . 
E 5 HOH G 166 566 175 HOH HOH . 
E 5 HOH G 167 567 239 HOH HOH . 
E 5 HOH G 168 568 254 HOH HOH . 
E 5 HOH G 169 569 125 HOH HOH . 
E 5 HOH G 170 570 50 HOH HOH . 
E 5 HOH G 171 571 84 HOH HOH . 
E 5 HOH G 172 572 176 HOH HOH . 
E 5 HOH G 173 573 191 HOH HOH . 
E 5 HOH G 174 574 157 HOH HOH . 
E 5 HOH G 175 575 192 HOH HOH . 
E 5 HOH G 176 576 113 HOH HOH . 
E 5 HOH G 177 577 217 HOH HOH . 
E 5 HOH G 178 578 115 HOH HOH . 
E 5 HOH G 179 579 116 HOH HOH . 
E 5 HOH G 180 580 225 HOH HOH . 
E 5 HOH G 181 581 252 HOH HOH . 
E 5 HOH G 182 582 119 HOH HOH . 
E 5 HOH G 183 583 258 HOH HOH . 
E 5 HOH G 184 584 107 HOH HOH . 
E 5 HOH G 185 585 195 HOH HOH . 
E 5 HOH G 186 586 102 HOH HOH . 
E 5 HOH G 187 587 77 HOH HOH . 
E 5 HOH G 188 588 251 HOH HOH . 
E 5 HOH G 189 589 150 HOH HOH . 
E 5 HOH G 190 590 213 HOH HOH . 
E 5 HOH G 191 591 98 HOH HOH . 
E 5 HOH G 192 592 146 HOH HOH . 
E 5 HOH G 193 593 197 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       4 
_atom_site.Cartn_x               12.859 
_atom_site.Cartn_y               3.501 
_atom_site.Cartn_z               -14.845 
_atom_site.occupancy             0.83 
_atom_site.B_iso_or_equiv        47.31 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NA 
_atom_site.auth_comp_id          NA 
_atom_site.auth_seq_id           303 
_atom_site.auth_asym_id          G 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           333 
_model_server_stats.encode_time_ms          14 
_model_server_stats.element_count           1 
#