data_6LPK
#
_model_server_result.job_id            nbpt5bJhn807YHReskcjlw 
_model_server_result.datetime_utc      '2024-11-22 19:55:05' 
_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          6lpk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"W","auth_seq_id":2422}' 
#
_entry.id    6LPK 
#
_exptl.entry_id    6LPK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              184.361 
_entity.id                          13 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            TRIDECANE 
_entity.pdbx_number_of_molecules    4 
_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            6LPK 
_cell.length_a            40.5 
_cell.length_b            179.2 
_cell.length_c            142.9 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6LPK 
_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        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,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA 
_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
? 13 U N N 
? 13 W N N 
? 13 Z N N 
? 13 BA 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 96 A CYS 71 1_555 A SG CYS 184 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? 
disulf ? disulf2 A SG CYS 99 A CYS 74 1_555 A SG CYS 171 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.853 ? 
disulf ? disulf3 A SG CYS 102 A CYS 77 1_555 A SG CYS 191 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? 
disulf ? disulf4 A SG CYS 380 A CYS 259 1_555 A SG CYS 383 A CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? 
metalc ? metalc1 A OD1 ASP 77 A ASP 52 1_555 C NA NA . A NA 2402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? 
metalc ? metalc2 A OG SER 116 A SER 91 1_555 C NA NA . A NA 2402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? 
metalc ? metalc3 C NA NA . A NA 2402 1_555 CA O HOH . A HOH 2522 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? 
metalc ? metalc4 C NA NA . A NA 2402 1_555 CA O HOH . A HOH 2546 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? 
metalc ? metalc5 C NA NA . A NA 2402 1_555 CA O HOH . A HOH 2579 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.457 ? 
#
_chem_comp.formula           'C13 H28' 
_chem_comp.formula_weight    184.361 
_chem_comp.id                TRD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              TRIDECANE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'LIPID FRAGMENT' 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
C1 C2 TRD sing 678 n n 
C1 H11 TRD sing 679 n n 
C1 H12 TRD sing 680 n n 
C1 H13 TRD sing 681 n n 
C2 C3 TRD sing 682 n n 
C2 H21 TRD sing 683 n n 
C2 H22 TRD sing 684 n n 
C3 C4 TRD sing 685 n n 
C3 H31 TRD sing 686 n n 
C3 H32 TRD sing 687 n n 
C4 C5 TRD sing 688 n n 
C4 H41 TRD sing 689 n n 
C4 H42 TRD sing 690 n n 
C5 C6 TRD sing 691 n n 
C5 H51 TRD sing 692 n n 
C5 H52 TRD sing 693 n n 
C6 C7 TRD sing 694 n n 
C6 H61 TRD sing 695 n n 
C6 H62 TRD sing 696 n n 
C7 C8 TRD sing 697 n n 
C7 H71 TRD sing 698 n n 
C7 H72 TRD sing 699 n n 
C8 C9 TRD sing 700 n n 
C8 H81 TRD sing 701 n n 
C8 H82 TRD sing 702 n n 
C9 C10 TRD sing 703 n n 
C9 H91 TRD sing 704 n n 
C9 H92 TRD sing 705 n n 
C10 C11 TRD sing 706 n n 
C10 H101 TRD sing 707 n n 
C10 H102 TRD sing 708 n n 
C11 C12 TRD sing 709 n n 
C11 H111 TRD sing 710 n n 
C11 H112 TRD sing 711 n n 
C12 C13 TRD sing 712 n n 
C12 H121 TRD sing 713 n n 
C12 H122 TRD sing 714 n n 
C13 H131 TRD sing 715 n n 
C13 H132 TRD sing 716 n n 
C13 H133 TRD sing 717 n n 
#
_atom_sites.entry_id                     6LPK 
_atom_sites.fract_transf_matrix[1][1]    0.024691 
_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]    0.00558 
_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]    0.006998 
_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 2402 NA NA . 
D 4 CLR A 1 2403 2403 CLR CLR . 
E 4 CLR A 1 2404 2404 CLR CLR . 
F 4 CLR A 1 2405 2405 CLR CLR . 
G 5 D12 A 1 2406 2406 D12 D12 . 
H 6 MYS A 1 2407 2407 MYS MYS . 
I 7 HEX A 1 2408 2408 HEX HEX . 
J 6 MYS A 1 2409 2409 MYS MYS . 
K 8 8K6 A 1 2410 2410 8K6 8K6 . 
L 9 D10 A 1 2411 2411 D10 D10 . 
M 10 OCT A 1 2412 2412 OCT OCT . 
N 10 OCT A 1 2413 2413 OCT OCT . 
O 6 MYS A 1 2414 2414 MYS MYS . 
P 11 UND A 1 2415 2415 UND UND . 
Q 12 ER0 A 1 2416 2416 ER0 ER0 . 
R 6 MYS A 1 2417 2417 MYS MYS . 
S 8 8K6 A 1 2418 2418 8K6 8K6 . 
T 8 8K6 A 1 2419 2419 8K6 8K6 . 
U 13 TRD A 1 2420 2420 TRD TRD . 
V 10 OCT A 1 2421 2422 OCT OCT . 
W 13 TRD A 1 2422 2423 TRD TRD . 
X 12 ER0 A 1 2423 2424 ER0 ER0 . 
Y 6 MYS A 1 2424 2425 MYS MYS . 
Z 13 TRD A 1 2425 2426 TRD TRD . 
AA 6 MYS A 1 2426 2427 MYS MYS . 
BA 13 TRD A 1 2427 2428 TRD TRD . 
CA 14 HOH A 1 2501 2681 HOH HOH . 
CA 14 HOH A 2 2502 2505 HOH HOH . 
CA 14 HOH A 3 2503 2689 HOH HOH . 
CA 14 HOH A 4 2504 2658 HOH HOH . 
CA 14 HOH A 5 2505 2603 HOH HOH . 
CA 14 HOH A 6 2506 2594 HOH HOH . 
CA 14 HOH A 7 2507 2512 HOH HOH . 
CA 14 HOH A 8 2508 2575 HOH HOH . 
CA 14 HOH A 9 2509 2508 HOH HOH . 
CA 14 HOH A 10 2510 2604 HOH HOH . 
CA 14 HOH A 11 2511 2597 HOH HOH . 
CA 14 HOH A 12 2512 2548 HOH HOH . 
CA 14 HOH A 13 2513 2536 HOH HOH . 
CA 14 HOH A 14 2514 2530 HOH HOH . 
CA 14 HOH A 15 2515 2585 HOH HOH . 
CA 14 HOH A 16 2516 2678 HOH HOH . 
CA 14 HOH A 17 2517 2521 HOH HOH . 
CA 14 HOH A 18 2518 2596 HOH HOH . 
CA 14 HOH A 19 2519 2528 HOH HOH . 
CA 14 HOH A 20 2520 2517 HOH HOH . 
CA 14 HOH A 21 2521 2573 HOH HOH . 
CA 14 HOH A 22 2522 2529 HOH HOH . 
CA 14 HOH A 23 2523 2562 HOH HOH . 
CA 14 HOH A 24 2524 2563 HOH HOH . 
CA 14 HOH A 25 2525 2558 HOH HOH . 
CA 14 HOH A 26 2526 2641 HOH HOH . 
CA 14 HOH A 27 2527 2534 HOH HOH . 
CA 14 HOH A 28 2528 2654 HOH HOH . 
CA 14 HOH A 29 2529 2643 HOH HOH . 
CA 14 HOH A 30 2530 2567 HOH HOH . 
CA 14 HOH A 31 2531 2513 HOH HOH . 
CA 14 HOH A 32 2532 2520 HOH HOH . 
CA 14 HOH A 33 2533 2684 HOH HOH . 
CA 14 HOH A 34 2534 2615 HOH HOH . 
CA 14 HOH A 35 2535 2554 HOH HOH . 
CA 14 HOH A 36 2536 2532 HOH HOH . 
CA 14 HOH A 37 2537 2533 HOH HOH . 
CA 14 HOH A 38 2538 2542 HOH HOH . 
CA 14 HOH A 39 2539 2561 HOH HOH . 
CA 14 HOH A 40 2540 2516 HOH HOH . 
CA 14 HOH A 41 2541 2613 HOH HOH . 
CA 14 HOH A 42 2542 2514 HOH HOH . 
CA 14 HOH A 43 2543 2583 HOH HOH . 
CA 14 HOH A 44 2544 2511 HOH HOH . 
CA 14 HOH A 45 2545 2519 HOH HOH . 
CA 14 HOH A 46 2546 2552 HOH HOH . 
CA 14 HOH A 47 2547 2518 HOH HOH . 
CA 14 HOH A 48 2548 2515 HOH HOH . 
CA 14 HOH A 49 2549 2522 HOH HOH . 
CA 14 HOH A 50 2550 2629 HOH HOH . 
CA 14 HOH A 51 2551 2531 HOH HOH . 
CA 14 HOH A 52 2552 2527 HOH HOH . 
CA 14 HOH A 53 2553 2526 HOH HOH . 
CA 14 HOH A 54 2554 2535 HOH HOH . 
CA 14 HOH A 55 2555 2601 HOH HOH . 
CA 14 HOH A 56 2556 2668 HOH HOH . 
CA 14 HOH A 57 2557 2578 HOH HOH . 
CA 14 HOH A 58 2558 2637 HOH HOH . 
CA 14 HOH A 59 2559 2666 HOH HOH . 
CA 14 HOH A 60 2560 2638 HOH HOH . 
CA 14 HOH A 61 2561 2543 HOH HOH . 
CA 14 HOH A 62 2562 2639 HOH HOH . 
CA 14 HOH A 63 2563 2608 HOH HOH . 
CA 14 HOH A 64 2564 2572 HOH HOH . 
CA 14 HOH A 65 2565 2664 HOH HOH . 
CA 14 HOH A 66 2566 2524 HOH HOH . 
CA 14 HOH A 67 2567 2620 HOH HOH . 
CA 14 HOH A 68 2568 2523 HOH HOH . 
CA 14 HOH A 69 2569 2541 HOH HOH . 
CA 14 HOH A 70 2570 2559 HOH HOH . 
CA 14 HOH A 71 2571 2679 HOH HOH . 
CA 14 HOH A 72 2572 2553 HOH HOH . 
CA 14 HOH A 73 2573 2525 HOH HOH . 
CA 14 HOH A 74 2574 2546 HOH HOH . 
CA 14 HOH A 75 2575 2564 HOH HOH . 
CA 14 HOH A 76 2576 2560 HOH HOH . 
CA 14 HOH A 77 2577 2570 HOH HOH . 
CA 14 HOH A 78 2578 2566 HOH HOH . 
CA 14 HOH A 79 2579 2579 HOH HOH . 
CA 14 HOH A 80 2580 2616 HOH HOH . 
CA 14 HOH A 81 2581 2569 HOH HOH . 
CA 14 HOH A 82 2582 2577 HOH HOH . 
CA 14 HOH A 83 2583 2557 HOH HOH . 
CA 14 HOH A 84 2584 2676 HOH HOH . 
CA 14 HOH A 85 2585 2609 HOH HOH . 
CA 14 HOH A 86 2586 2539 HOH HOH . 
CA 14 HOH A 87 2587 2550 HOH HOH . 
CA 14 HOH A 88 2588 2683 HOH HOH . 
CA 14 HOH A 89 2589 2547 HOH HOH . 
CA 14 HOH A 90 2590 2576 HOH HOH . 
CA 14 HOH A 91 2591 2685 HOH HOH . 
CA 14 HOH A 92 2592 2686 HOH HOH . 
CA 14 HOH A 93 2593 2556 HOH HOH . 
CA 14 HOH A 94 2594 2537 HOH HOH . 
CA 14 HOH A 95 2595 2581 HOH HOH . 
CA 14 HOH A 96 2596 2618 HOH HOH . 
CA 14 HOH A 97 2597 2510 HOH HOH . 
CA 14 HOH A 98 2598 2574 HOH HOH . 
CA 14 HOH A 99 2599 2688 HOH HOH . 
CA 14 HOH A 100 2600 2625 HOH HOH . 
CA 14 HOH A 101 2601 2680 HOH HOH . 
CA 14 HOH A 102 2602 2607 HOH HOH . 
CA 14 HOH A 103 2603 2645 HOH HOH . 
CA 14 HOH A 104 2604 2589 HOH HOH . 
CA 14 HOH A 105 2605 2584 HOH HOH . 
CA 14 HOH A 106 2606 2592 HOH HOH . 
CA 14 HOH A 107 2607 2538 HOH HOH . 
CA 14 HOH A 108 2608 2545 HOH HOH . 
CA 14 HOH A 109 2609 2655 HOH HOH . 
CA 14 HOH A 110 2610 2652 HOH HOH . 
CA 14 HOH A 111 2611 2621 HOH HOH . 
CA 14 HOH A 112 2612 2507 HOH HOH . 
CA 14 HOH A 113 2613 2677 HOH HOH . 
CA 14 HOH A 114 2614 2614 HOH HOH . 
CA 14 HOH A 115 2615 2591 HOH HOH . 
CA 14 HOH A 116 2616 2687 HOH HOH . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 C C1 TRD . . . W 13 -19.265 -1.148 26.517 1 105.03 ? C1 TRD 2422 A 1 
HETATM 2 C C2 TRD . . . W 13 -18.173 -0.292 27.118 1 99.62 ? C2 TRD 2422 A 1 
HETATM 3 C C3 TRD . . . W 13 -18.667 0.757 28.085 1 96.23 ? C3 TRD 2422 A 1 
HETATM 4 C C4 TRD . . . W 13 -18.181 2.148 27.769 1 90.96 ? C4 TRD 2422 A 1 
HETATM 5 C C5 TRD . . . W 13 -18.143 3.081 28.948 1 89.36 ? C5 TRD 2422 A 1 
HETATM 6 C C6 TRD . . . W 13 -16.779 3.66 29.226 1 86.21 ? C6 TRD 2422 A 1 
HETATM 7 C C7 TRD . . . W 13 -16.532 5.002 28.604 1 79.94 ? C7 TRD 2422 A 1 
HETATM 8 C C8 TRD . . . W 13 -17.437 6.085 29.122 1 86.43 ? C8 TRD 2422 A 1 
HETATM 9 C C9 TRD . . . W 13 -16.772 7.423 29.32 1 86.92 ? C9 TRD 2422 A 1 
HETATM 10 C C10 TRD . . . W 13 -17.571 8.37 30.179 1 83.81 ? C10 TRD 2422 A 1 
HETATM 11 C C11 TRD . . . W 13 -17.643 9.797 29.678 1 85.28 ? C11 TRD 2422 A 1 
HETATM 12 C C12 TRD . . . W 13 -19.019 10.42 29.787 1 84.27 ? C12 TRD 2422 A 1 
HETATM 13 C C13 TRD . . . W 13 -19.662 10.322 31.159 1 85.87 ? C13 TRD 2422 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           296 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           13 
#