data_8VME
#
_model_server_result.job_id            jYR9zRpK_R3FVS3hyiGDvg 
_model_server_result.datetime_utc      '2024-11-25 08:23:10' 
_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          8vme 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":410}' 
#
_entry.id    8VME 
#
_exptl.entry_id    8VME 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              22.99 
_entity.id                          7 
_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            8VME 
_cell.length_a            82.257 
_cell.length_b            82.257 
_cell.length_c            280.99 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8VME 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    'P 61 2 (x,y,z+5/12)' 
_symmetry.space_group_name_H-M     'P 61 2 2' 
#
_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,I,J,K,L,M,N,O 
_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                      7 
_struct_asym.id                             M 
_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 C C PRO 11 C PRO 44 1_555 C N SEP 12 C SEP 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale2 C C SEP 12 C SEP 45 1_555 C N LEU 13 C LEU 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
metalc ? metalc1 A OD1 ASN 162 A ASN 186 1_555 E MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? 
metalc ? metalc2 A OD2 ASP 176 A ASP 200 1_555 E MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? 
metalc ? metalc3 A OD1 ASP 176 A ASP 200 1_555 F MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? 
metalc ? metalc4 A OD2 ASP 176 A ASP 200 1_555 F MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.809 ? 
metalc ? metalc5 D O1B ADP . A ADP 401 1_555 E MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? 
metalc ? metalc6 D O1A ADP . A ADP 401 1_555 E MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? 
metalc ? metalc7 D O3B ADP . A ADP 401 1_555 F MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? 
metalc ? metalc8 F MG MG . A MG 403 1_555 N O HOH . A HOH 518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.224 ? 
metalc ? metalc9 F MG MG . A MG 403 1_555 N O HOH . A HOH 584 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? 
metalc ? metalc10 F MG MG . A MG 403 1_555 N O HOH . A HOH 621 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? 
metalc ? metalc11 M NA NA . A NA 410 1_555 N O HOH . A HOH 646 8_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? 
#
_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                     8VME 
_atom_sites.fract_transf_matrix[1][1]    0.012157 
_atom_sites.fract_transf_matrix[1][2]    0.007019 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014038 
_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]    0.003559 
_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
D 4 ADP A 1 401 1 ADP ADP . 
E 5 MG A 1 402 1 MG MG . 
F 5 MG A 1 403 3 MG MG . 
G 6 GOL A 1 404 1 GOL GOL . 
H 6 GOL A 1 405 2 GOL GOL . 
I 6 GOL A 1 406 5 GOL GOL . 
J 6 GOL A 1 407 7 GOL GOL . 
K 6 GOL A 1 408 8 GOL GOL . 
L 6 GOL A 1 409 9 GOL GOL . 
M 7 NA A 1 410 1 NA NA . 
N 8 HOH A 1 501 386 HOH HOH . 
N 8 HOH A 2 502 358 HOH HOH . 
N 8 HOH A 3 503 394 HOH HOH . 
N 8 HOH A 4 504 381 HOH HOH . 
N 8 HOH A 5 505 390 HOH HOH . 
N 8 HOH A 6 506 372 HOH HOH . 
N 8 HOH A 7 507 401 HOH HOH . 
N 8 HOH A 8 508 397 HOH HOH . 
N 8 HOH A 9 509 342 HOH HOH . 
N 8 HOH A 10 510 346 HOH HOH . 
N 8 HOH A 11 511 209 HOH HOH . 
N 8 HOH A 12 512 39 HOH HOH . 
N 8 HOH A 13 513 364 HOH HOH . 
N 8 HOH A 14 514 340 HOH HOH . 
N 8 HOH A 15 515 7 HOH HOH . 
N 8 HOH A 16 516 370 HOH HOH . 
N 8 HOH A 17 517 30 HOH HOH . 
N 8 HOH A 18 518 1 HOH HOH . 
N 8 HOH A 19 519 101 HOH HOH . 
N 8 HOH A 20 520 389 HOH HOH . 
N 8 HOH A 21 521 88 HOH HOH . 
N 8 HOH A 22 522 87 HOH HOH . 
N 8 HOH A 23 523 22 HOH HOH . 
N 8 HOH A 24 524 74 HOH HOH . 
N 8 HOH A 25 525 19 HOH HOH . 
N 8 HOH A 26 526 374 HOH HOH . 
N 8 HOH A 27 527 145 HOH HOH . 
N 8 HOH A 28 528 338 HOH HOH . 
N 8 HOH A 29 529 5 HOH HOH . 
N 8 HOH A 30 530 33 HOH HOH . 
N 8 HOH A 31 531 55 HOH HOH . 
N 8 HOH A 32 532 360 HOH HOH . 
N 8 HOH A 33 533 367 HOH HOH . 
N 8 HOH A 34 534 35 HOH HOH . 
N 8 HOH A 35 535 57 HOH HOH . 
N 8 HOH A 36 536 49 HOH HOH . 
N 8 HOH A 37 537 335 HOH HOH . 
N 8 HOH A 38 538 46 HOH HOH . 
N 8 HOH A 39 539 6 HOH HOH . 
N 8 HOH A 40 540 44 HOH HOH . 
N 8 HOH A 41 541 334 HOH HOH . 
N 8 HOH A 42 542 43 HOH HOH . 
N 8 HOH A 43 543 113 HOH HOH . 
N 8 HOH A 44 544 120 HOH HOH . 
N 8 HOH A 45 545 32 HOH HOH . 
N 8 HOH A 46 546 333 HOH HOH . 
N 8 HOH A 47 547 28 HOH HOH . 
N 8 HOH A 48 548 317 HOH HOH . 
N 8 HOH A 49 549 50 HOH HOH . 
N 8 HOH A 50 550 93 HOH HOH . 
N 8 HOH A 51 551 196 HOH HOH . 
N 8 HOH A 52 552 4 HOH HOH . 
N 8 HOH A 53 553 363 HOH HOH . 
N 8 HOH A 54 554 322 HOH HOH . 
N 8 HOH A 55 555 3 HOH HOH . 
N 8 HOH A 56 556 10 HOH HOH . 
N 8 HOH A 57 557 76 HOH HOH . 
N 8 HOH A 58 558 48 HOH HOH . 
N 8 HOH A 59 559 382 HOH HOH . 
N 8 HOH A 60 560 75 HOH HOH . 
N 8 HOH A 61 561 9 HOH HOH . 
N 8 HOH A 62 562 350 HOH HOH . 
N 8 HOH A 63 563 132 HOH HOH . 
N 8 HOH A 64 564 51 HOH HOH . 
N 8 HOH A 65 565 41 HOH HOH . 
N 8 HOH A 66 566 352 HOH HOH . 
N 8 HOH A 67 567 343 HOH HOH . 
N 8 HOH A 68 568 328 HOH HOH . 
N 8 HOH A 69 569 8 HOH HOH . 
N 8 HOH A 70 570 18 HOH HOH . 
N 8 HOH A 71 571 82 HOH HOH . 
N 8 HOH A 72 572 73 HOH HOH . 
N 8 HOH A 73 573 223 HOH HOH . 
N 8 HOH A 74 574 34 HOH HOH . 
N 8 HOH A 75 575 20 HOH HOH . 
N 8 HOH A 76 576 354 HOH HOH . 
N 8 HOH A 77 577 347 HOH HOH . 
N 8 HOH A 78 578 387 HOH HOH . 
N 8 HOH A 79 579 13 HOH HOH . 
N 8 HOH A 80 580 385 HOH HOH . 
N 8 HOH A 81 581 47 HOH HOH . 
N 8 HOH A 82 582 318 HOH HOH . 
N 8 HOH A 83 583 40 HOH HOH . 
N 8 HOH A 84 584 348 HOH HOH . 
N 8 HOH A 85 585 324 HOH HOH . 
N 8 HOH A 86 586 365 HOH HOH . 
N 8 HOH A 87 587 186 HOH HOH . 
N 8 HOH A 88 588 42 HOH HOH . 
N 8 HOH A 89 589 24 HOH HOH . 
N 8 HOH A 90 590 265 HOH HOH . 
N 8 HOH A 91 591 349 HOH HOH . 
N 8 HOH A 92 592 279 HOH HOH . 
N 8 HOH A 93 593 59 HOH HOH . 
N 8 HOH A 94 594 158 HOH HOH . 
N 8 HOH A 95 595 353 HOH HOH . 
N 8 HOH A 96 596 214 HOH HOH . 
N 8 HOH A 97 597 141 HOH HOH . 
N 8 HOH A 98 598 69 HOH HOH . 
N 8 HOH A 99 599 379 HOH HOH . 
N 8 HOH A 100 600 108 HOH HOH . 
N 8 HOH A 101 601 14 HOH HOH . 
N 8 HOH A 102 602 375 HOH HOH . 
N 8 HOH A 103 603 337 HOH HOH . 
N 8 HOH A 104 604 351 HOH HOH . 
N 8 HOH A 105 605 359 HOH HOH . 
N 8 HOH A 106 606 90 HOH HOH . 
N 8 HOH A 107 607 54 HOH HOH . 
N 8 HOH A 108 608 344 HOH HOH . 
N 8 HOH A 109 609 83 HOH HOH . 
N 8 HOH A 110 610 16 HOH HOH . 
N 8 HOH A 111 611 384 HOH HOH . 
N 8 HOH A 112 612 65 HOH HOH . 
N 8 HOH A 113 613 287 HOH HOH . 
N 8 HOH A 114 614 80 HOH HOH . 
N 8 HOH A 115 615 99 HOH HOH . 
N 8 HOH A 116 616 128 HOH HOH . 
N 8 HOH A 117 617 66 HOH HOH . 
N 8 HOH A 118 618 140 HOH HOH . 
N 8 HOH A 119 619 153 HOH HOH . 
N 8 HOH A 120 620 37 HOH HOH . 
N 8 HOH A 121 621 345 HOH HOH . 
N 8 HOH A 122 622 131 HOH HOH . 
N 8 HOH A 123 623 91 HOH HOH . 
N 8 HOH A 124 624 15 HOH HOH . 
N 8 HOH A 125 625 200 HOH HOH . 
N 8 HOH A 126 626 62 HOH HOH . 
N 8 HOH A 127 627 391 HOH HOH . 
N 8 HOH A 128 628 151 HOH HOH . 
N 8 HOH A 129 629 84 HOH HOH . 
N 8 HOH A 130 630 17 HOH HOH . 
N 8 HOH A 131 631 21 HOH HOH . 
N 8 HOH A 132 632 378 HOH HOH . 
N 8 HOH A 133 633 400 HOH HOH . 
N 8 HOH A 134 634 260 HOH HOH . 
N 8 HOH A 135 635 98 HOH HOH . 
N 8 HOH A 136 636 170 HOH HOH . 
N 8 HOH A 137 637 185 HOH HOH . 
N 8 HOH A 138 638 392 HOH HOH . 
N 8 HOH A 139 639 119 HOH HOH . 
N 8 HOH A 140 640 321 HOH HOH . 
N 8 HOH A 141 641 63 HOH HOH . 
N 8 HOH A 142 642 104 HOH HOH . 
N 8 HOH A 143 643 388 HOH HOH . 
N 8 HOH A 144 644 199 HOH HOH . 
N 8 HOH A 145 645 377 HOH HOH . 
N 8 HOH A 146 646 361 HOH HOH . 
N 8 HOH A 147 647 112 HOH HOH . 
N 8 HOH A 148 648 395 HOH HOH . 
N 8 HOH A 149 649 371 HOH HOH . 
N 8 HOH A 150 650 393 HOH HOH . 
N 8 HOH A 151 651 399 HOH HOH . 
N 8 HOH A 152 652 380 HOH HOH . 
N 8 HOH A 153 653 58 HOH HOH . 
N 8 HOH A 154 654 100 HOH HOH . 
N 8 HOH A 155 655 164 HOH HOH . 
N 8 HOH A 156 656 67 HOH HOH . 
N 8 HOH A 157 657 130 HOH HOH . 
N 8 HOH A 158 658 326 HOH HOH . 
N 8 HOH A 159 659 383 HOH HOH . 
N 8 HOH A 160 660 147 HOH HOH . 
N 8 HOH A 161 661 187 HOH HOH . 
N 8 HOH A 162 662 310 HOH HOH . 
N 8 HOH A 163 663 356 HOH HOH . 
N 8 HOH A 164 664 160 HOH HOH . 
N 8 HOH A 165 665 92 HOH HOH . 
O 8 HOH B 1 501 323 HOH HOH . 
O 8 HOH B 2 502 332 HOH HOH . 
O 8 HOH B 3 503 339 HOH HOH . 
O 8 HOH B 4 504 64 HOH HOH . 
O 8 HOH B 5 505 52 HOH HOH . 
O 8 HOH B 6 506 121 HOH HOH . 
O 8 HOH B 7 507 23 HOH HOH . 
O 8 HOH B 8 508 25 HOH HOH . 
O 8 HOH B 9 509 396 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         M 
_atom_site.label_entity_id       7 
_atom_site.Cartn_x               -7.415 
_atom_site.Cartn_y               -32.753 
_atom_site.Cartn_z               -7.105 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        74.88 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NA 
_atom_site.auth_comp_id          NA 
_atom_site.auth_seq_id           410 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           1 
#