data_5VRA
#
_model_server_result.job_id            WYXsBSZHn7qs7WstFmkzgw 
_model_server_result.datetime_utc      '2024-11-26 12:55:30' 
_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          5vra 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":2402}' 
#
_entry.id    5VRA 
#
_exptl.entry_id    5VRA 
_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    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            5VRA 
_cell.length_a            39.82 
_cell.length_b            178.9 
_cell.length_c            140.19 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VRA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_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,P,Q,R,S,T,U,V,W,X 
_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                      3 
_struct_asym.id                             C 
_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
disulf ? disulf1 A SG CYS 96 A CYS 71 1_555 A SG CYS 184 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf2 A SG CYS 99 A CYS 74 1_555 A SG CYS 171 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf3 A SG CYS 102 A CYS 77 1_555 A SG CYS 191 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf4 A SG CYS 380 A CYS 259 1_555 A SG CYS 383 A CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
metalc ? metalc1 A OD1 ASP 77 A ASP 52 1_555 C NA NA . A NA 2402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? 
metalc ? metalc2 A OG SER 116 A SER 91 1_555 C NA NA . A NA 2402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? 
metalc ? metalc3 C NA NA . A NA 2402 1_555 X O HOH . A HOH 2530 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? 
metalc ? metalc4 C NA NA . A NA 2402 1_555 X O HOH . A HOH 2561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? 
metalc ? metalc5 C NA NA . A NA 2402 1_555 X O HOH . A HOH 2576 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? 
#
_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                     5VRA 
_atom_sites.fract_transf_matrix[1][1]    0.025113 
_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]    0.00559 
_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]    0.007133 
_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 ZMA A 1 2401 2401 ZMA ZMA . 
C 3 NA A 1 2402 1 NA NA . 
D 4 CLR A 1 2403 2404 CLR CLR . 
E 4 CLR A 1 2404 2405 CLR CLR . 
F 4 CLR A 1 2405 2406 CLR CLR . 
G 5 OLC A 1 2406 2427 OLC OLC . 
H 5 OLC A 1 2407 2428 OLC OLC . 
I 5 OLC A 1 2408 2429 OLC OLC . 
J 5 OLC A 1 2409 2430 OLC OLC . 
K 5 OLC A 1 2410 2431 OLC OLC . 
L 5 OLC A 1 2411 2432 OLC OLC . 
M 6 OLA A 1 2412 2409 OLA OLA . 
N 6 OLA A 1 2413 2410 OLA OLA . 
O 6 OLA A 1 2414 2411 OLA OLA . 
P 6 OLA A 1 2415 2412 OLA OLA . 
Q 6 OLA A 1 2416 2413 OLA OLA . 
R 6 OLA A 1 2417 2414 OLA OLA . 
S 6 OLA A 1 2418 2415 OLA OLA . 
T 6 OLA A 1 2419 2416 OLA OLA . 
U 6 OLA A 1 2420 2417 OLA OLA . 
V 6 OLA A 1 2421 2418 OLA OLA . 
W 7 OLB A 1 2422 2426 OLB OLB . 
X 8 HOH A 1 2501 90 HOH HOH . 
X 8 HOH A 2 2502 79 HOH HOH . 
X 8 HOH A 3 2503 35 HOH HOH . 
X 8 HOH A 4 2504 69 HOH HOH . 
X 8 HOH A 5 2505 45 HOH HOH . 
X 8 HOH A 6 2506 80 HOH HOH . 
X 8 HOH A 7 2507 93 HOH HOH . 
X 8 HOH A 8 2508 13 HOH HOH . 
X 8 HOH A 9 2509 49 HOH HOH . 
X 8 HOH A 10 2510 18 HOH HOH . 
X 8 HOH A 11 2511 33 HOH HOH . 
X 8 HOH A 12 2512 28 HOH HOH . 
X 8 HOH A 13 2513 52 HOH HOH . 
X 8 HOH A 14 2514 10 HOH HOH . 
X 8 HOH A 15 2515 50 HOH HOH . 
X 8 HOH A 16 2516 12 HOH HOH . 
X 8 HOH A 17 2517 39 HOH HOH . 
X 8 HOH A 18 2518 44 HOH HOH . 
X 8 HOH A 19 2519 1 HOH HOH . 
X 8 HOH A 20 2520 7 HOH HOH . 
X 8 HOH A 21 2521 30 HOH HOH . 
X 8 HOH A 22 2522 15 HOH HOH . 
X 8 HOH A 23 2523 43 HOH HOH . 
X 8 HOH A 24 2524 54 HOH HOH . 
X 8 HOH A 25 2525 11 HOH HOH . 
X 8 HOH A 26 2526 67 HOH HOH . 
X 8 HOH A 27 2527 78 HOH HOH . 
X 8 HOH A 28 2528 14 HOH HOH . 
X 8 HOH A 29 2529 87 HOH HOH . 
X 8 HOH A 30 2530 8 HOH HOH . 
X 8 HOH A 31 2531 19 HOH HOH . 
X 8 HOH A 32 2532 91 HOH HOH . 
X 8 HOH A 33 2533 81 HOH HOH . 
X 8 HOH A 34 2534 73 HOH HOH . 
X 8 HOH A 35 2535 53 HOH HOH . 
X 8 HOH A 36 2536 9 HOH HOH . 
X 8 HOH A 37 2537 89 HOH HOH . 
X 8 HOH A 38 2538 85 HOH HOH . 
X 8 HOH A 39 2539 24 HOH HOH . 
X 8 HOH A 40 2540 40 HOH HOH . 
X 8 HOH A 41 2541 68 HOH HOH . 
X 8 HOH A 42 2542 31 HOH HOH . 
X 8 HOH A 43 2543 26 HOH HOH . 
X 8 HOH A 44 2544 57 HOH HOH . 
X 8 HOH A 45 2545 3 HOH HOH . 
X 8 HOH A 46 2546 2 HOH HOH . 
X 8 HOH A 47 2547 16 HOH HOH . 
X 8 HOH A 48 2548 56 HOH HOH . 
X 8 HOH A 49 2549 27 HOH HOH . 
X 8 HOH A 50 2550 25 HOH HOH . 
X 8 HOH A 51 2551 42 HOH HOH . 
X 8 HOH A 52 2552 20 HOH HOH . 
X 8 HOH A 53 2553 55 HOH HOH . 
X 8 HOH A 54 2554 17 HOH HOH . 
X 8 HOH A 55 2555 71 HOH HOH . 
X 8 HOH A 56 2556 21 HOH HOH . 
X 8 HOH A 57 2557 36 HOH HOH . 
X 8 HOH A 58 2558 66 HOH HOH . 
X 8 HOH A 59 2559 51 HOH HOH . 
X 8 HOH A 60 2560 5 HOH HOH . 
X 8 HOH A 61 2561 22 HOH HOH . 
X 8 HOH A 62 2562 61 HOH HOH . 
X 8 HOH A 63 2563 4 HOH HOH . 
X 8 HOH A 64 2564 48 HOH HOH . 
X 8 HOH A 65 2565 65 HOH HOH . 
X 8 HOH A 66 2566 82 HOH HOH . 
X 8 HOH A 67 2567 46 HOH HOH . 
X 8 HOH A 68 2568 63 HOH HOH . 
X 8 HOH A 69 2569 59 HOH HOH . 
X 8 HOH A 70 2570 92 HOH HOH . 
X 8 HOH A 71 2571 70 HOH HOH . 
X 8 HOH A 72 2572 75 HOH HOH . 
X 8 HOH A 73 2573 88 HOH HOH . 
X 8 HOH A 74 2574 37 HOH HOH . 
X 8 HOH A 75 2575 60 HOH HOH . 
X 8 HOH A 76 2576 23 HOH HOH . 
X 8 HOH A 77 2577 86 HOH HOH . 
X 8 HOH A 78 2578 72 HOH HOH . 
X 8 HOH A 79 2579 6 HOH HOH . 
X 8 HOH A 80 2580 32 HOH HOH . 
X 8 HOH A 81 2581 76 HOH HOH . 
X 8 HOH A 82 2582 64 HOH HOH . 
X 8 HOH A 83 2583 84 HOH HOH . 
X 8 HOH A 84 2584 29 HOH HOH . 
X 8 HOH A 85 2585 41 HOH HOH . 
X 8 HOH A 86 2586 74 HOH HOH . 
X 8 HOH A 87 2587 62 HOH HOH . 
X 8 HOH A 88 2588 34 HOH HOH . 
X 8 HOH A 89 2589 38 HOH HOH . 
X 8 HOH A 90 2590 94 HOH HOH . 
X 8 HOH A 91 2591 77 HOH HOH . 
X 8 HOH A 92 2592 58 HOH HOH . 
X 8 HOH A 93 2593 83 HOH HOH . 
X 8 HOH A 94 2594 47 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               -3.963 
_atom_site.Cartn_y               -8.35 
_atom_site.Cartn_z               16.521 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        35.55 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NA 
_atom_site.auth_comp_id          NA 
_atom_site.auth_seq_id           2402 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           287 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           1 
#