data_5JDH
#
_model_server_result.job_id            ZrlMAdRFdjAsS3OSJ3onkQ 
_model_server_result.datetime_utc      '2024-11-26 20:06:35' 
_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          5jdh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"T","auth_seq_id":419}' 
#
_entry.id    5JDH 
#
_exptl.entry_id    5JDH 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              370.436 
_entity.id                          7 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL 
_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            5JDH 
_cell.length_a            49.883 
_cell.length_b            72.218 
_cell.length_c            96.099 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5JDH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_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,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                      7 
_struct_asym.id                             T 
_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 O ALA 47 A ALA 47 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? 
metalc ? metalc2 A OG1 THR 50 A THR 50 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.358 ? 
metalc ? metalc3 A O THR 50 A THR 50 1_555 E CA CA . A CA 404 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.323 ? 
metalc ? metalc4 A OG SER 51 A SER 51 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? 
metalc ? metalc5 A OE1 GLU 54 A GLU 54 1_555 E CA CA . A CA 404 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.345 ? 
metalc ? metalc6 A OE2 GLU 54 A GLU 54 1_555 E CA CA . A CA 404 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.396 ? 
metalc ? metalc7 A OE2 GLU 54 A GLU 54 1_555 E CA CA . A CA 404 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.608 ? 
metalc ? metalc8 A O ILE 118 A ILE 118 1_555 D CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? 
metalc ? metalc9 A OD1 ASP 121 A ASP 121 1_555 D CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? 
metalc ? metalc10 A O GLY 122 A GLY 122 1_555 D CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? 
metalc ? metalc11 A OD2 ASP 127 A ASP 127 1_555 D CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.504 ? 
metalc ? metalc12 A O THR 209 A THR 209 1_555 E CA CA . A CA 404 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.24 ? 
metalc ? metalc13 A OE2 GLU 213 A GLU 213 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? 
metalc ? metalc14 A OE1 GLU 213 A GLU 213 1_555 E CA CA . A CA 404 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.316 ? 
metalc ? metalc15 A OE2 GLU 213 A GLU 213 1_555 E CA CA . A CA 404 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.542 ? 
metalc ? metalc16 A OE2 GLU 213 A GLU 213 1_555 E CA CA . A CA 404 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.334 ? 
metalc ? metalc17 A OG SER 236 A SER 236 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? 
metalc ? metalc18 A OD1 ASP 240 A ASP 240 1_555 E CA CA . A CA 404 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.819 ? 
metalc ? metalc19 A OD2 ASP 240 A ASP 240 1_555 E CA CA . A CA 404 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.709 ? 
metalc ? metalc20 D CA CA . A CA 403 1_555 X O HOH . A HOH 531 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.764 ? 
metalc ? metalc21 D CA CA . A CA 403 1_555 X O HOH . A HOH 540 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? 
metalc ? metalc22 E CA CA . A CA 404 1_555 X O HOH . A HOH 509 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.516 ? 
#
_chem_comp.formula           'C16 H34 O9' 
_chem_comp.formula_weight    370.436 
_chem_comp.id                PE8 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
O1 C2 PE8 sing 384 n n 
O1 HO1 PE8 sing 385 n n 
C2 C3 PE8 sing 386 n n 
C2 H21 PE8 sing 387 n n 
C2 H22 PE8 sing 388 n n 
C3 O4 PE8 sing 389 n n 
C3 H31 PE8 sing 390 n n 
C3 H32 PE8 sing 391 n n 
O4 C5 PE8 sing 392 n n 
C5 C6 PE8 sing 393 n n 
C5 H51 PE8 sing 394 n n 
C5 H52 PE8 sing 395 n n 
C6 O7 PE8 sing 396 n n 
C6 H61 PE8 sing 397 n n 
C6 H62 PE8 sing 398 n n 
O7 C8 PE8 sing 399 n n 
C8 C9 PE8 sing 400 n n 
C8 H81 PE8 sing 401 n n 
C8 H82 PE8 sing 402 n n 
C9 O10 PE8 sing 403 n n 
C9 H91 PE8 sing 404 n n 
C9 H92 PE8 sing 405 n n 
O10 C11 PE8 sing 406 n n 
C11 C12 PE8 sing 407 n n 
C11 H111 PE8 sing 408 n n 
C11 H112 PE8 sing 409 n n 
C12 O13 PE8 sing 410 n n 
C12 H121 PE8 sing 411 n n 
C12 H122 PE8 sing 412 n n 
O13 C14 PE8 sing 413 n n 
C14 C15 PE8 sing 414 n n 
C14 H141 PE8 sing 415 n n 
C14 H142 PE8 sing 416 n n 
C15 O16 PE8 sing 417 n n 
C15 H151 PE8 sing 418 n n 
C15 H152 PE8 sing 419 n n 
O16 C17 PE8 sing 420 n n 
C17 C18 PE8 sing 421 n n 
C17 H171 PE8 sing 422 n n 
C17 H172 PE8 sing 423 n n 
C18 O19 PE8 sing 424 n n 
C18 H181 PE8 sing 425 n n 
C18 H182 PE8 sing 426 n n 
O19 C20 PE8 sing 427 n n 
C20 C21 PE8 sing 428 n n 
C20 H201 PE8 sing 429 n n 
C20 H202 PE8 sing 430 n n 
C21 O22 PE8 sing 431 n n 
C21 H211 PE8 sing 432 n n 
C21 H212 PE8 sing 433 n n 
O22 C23 PE8 sing 434 n n 
C23 C24 PE8 sing 435 n n 
C23 H231 PE8 sing 436 n n 
C23 H232 PE8 sing 437 n n 
C24 O25 PE8 sing 438 n n 
C24 H241 PE8 sing 439 n n 
C24 H242 PE8 sing 440 n n 
O25 H25 PE8 sing 441 n n 
#
_atom_sites.entry_id                     5JDH 
_atom_sites.fract_transf_matrix[1][1]    0.020047 
_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]    0.013847 
_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]    0.010406 
_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 CL A 1 401 1 CL CL . 
C 3 NA A 1 402 2 NA NA . 
D 4 CA A 1 403 1 CA CA . 
E 4 CA A 1 404 2 CA CA . 
F 5 MYS A 1 405 9 MYS FAT . 
G 5 MYS A 1 406 13 MYS FAT . 
H 5 MYS A 1 407 15 MYS FAT . 
I 5 MYS A 1 408 18 MYS FAT . 
J 5 MYS A 1 409 19 MYS FAT . 
K 5 MYS A 1 410 20 MYS FAT . 
L 5 MYS A 1 411 22 MYS FAT . 
M 5 MYS A 1 412 23 MYS FAT . 
N 5 MYS A 1 413 26 MYS FAT . 
O 5 MYS A 1 414 27 MYS FAT . 
P 5 MYS A 1 415 28 MYS FAT . 
Q 5 MYS A 1 416 29 MYS FAT . 
R 6 1PE A 1 417 1 1PE PEG . 
S 6 1PE A 1 418 2 1PE PEG . 
T 7 PE8 A 1 419 3 PE8 PEG . 
U 6 1PE A 1 420 4 1PE PEG . 
V 8 PEG A 1 421 5 PEG PEG . 
W 9 OLC A 1 422 1 OLC MON . 
X 10 HOH A 1 501 57 HOH HOH . 
X 10 HOH A 2 502 14 HOH HOH . 
X 10 HOH A 3 503 4 HOH HOH . 
X 10 HOH A 4 504 17 HOH HOH . 
X 10 HOH A 5 505 18 HOH HOH . 
X 10 HOH A 6 506 8 HOH HOH . 
X 10 HOH A 7 507 49 HOH HOH . 
X 10 HOH A 8 508 2 HOH HOH . 
X 10 HOH A 9 509 54 HOH HOH . 
X 10 HOH A 10 510 27 HOH HOH . 
X 10 HOH A 11 511 21 HOH HOH . 
X 10 HOH A 12 512 20 HOH HOH . 
X 10 HOH A 13 513 41 HOH HOH . 
X 10 HOH A 14 514 1 HOH HOH . 
X 10 HOH A 15 515 6 HOH HOH . 
X 10 HOH A 16 516 11 HOH HOH . 
X 10 HOH A 17 517 22 HOH HOH . 
X 10 HOH A 18 518 23 HOH HOH . 
X 10 HOH A 19 519 28 HOH HOH . 
X 10 HOH A 20 520 47 HOH HOH . 
X 10 HOH A 21 521 10 HOH HOH . 
X 10 HOH A 22 522 33 HOH HOH . 
X 10 HOH A 23 523 5 HOH HOH . 
X 10 HOH A 24 524 13 HOH HOH . 
X 10 HOH A 25 525 24 HOH HOH . 
X 10 HOH A 26 526 15 HOH HOH . 
X 10 HOH A 27 527 32 HOH HOH . 
X 10 HOH A 28 528 34 HOH HOH . 
X 10 HOH A 29 529 29 HOH HOH . 
X 10 HOH A 30 530 26 HOH HOH . 
X 10 HOH A 31 531 7 HOH HOH . 
X 10 HOH A 32 532 16 HOH HOH . 
X 10 HOH A 33 533 55 HOH HOH . 
X 10 HOH A 34 534 30 HOH HOH . 
X 10 HOH A 35 535 45 HOH HOH . 
X 10 HOH A 36 536 12 HOH HOH . 
X 10 HOH A 37 537 53 HOH HOH . 
X 10 HOH A 38 538 37 HOH HOH . 
X 10 HOH A 39 539 35 HOH HOH . 
X 10 HOH A 40 540 3 HOH HOH . 
X 10 HOH A 41 541 46 HOH HOH . 
X 10 HOH A 42 542 25 HOH HOH . 
X 10 HOH A 43 543 56 HOH HOH . 
X 10 HOH A 44 544 40 HOH HOH . 
X 10 HOH A 45 545 36 HOH HOH . 
X 10 HOH A 46 546 50 HOH HOH . 
X 10 HOH A 47 547 19 HOH HOH . 
X 10 HOH A 48 548 31 HOH HOH . 
X 10 HOH A 49 549 43 HOH HOH . 
X 10 HOH A 50 550 9 HOH HOH . 
X 10 HOH A 51 551 38 HOH HOH . 
X 10 HOH A 52 552 51 HOH HOH . 
X 10 HOH A 53 553 52 HOH HOH . 
X 10 HOH A 54 554 44 HOH HOH . 
X 10 HOH A 55 555 42 HOH HOH . 
X 10 HOH A 56 556 48 HOH HOH . 
X 10 HOH A 57 557 39 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 O O1 PE8 . . . T 7 -16.256 11.851 38.539 1 86.09 ? O1 PE8 419 A 1 
HETATM 2 C C2 PE8 . . . T 7 -15.925 13.241 38.607 1 81.61 ? C2 PE8 419 A 1 
HETATM 3 C C3 PE8 . . . T 7 -16.498 13.959 37.384 1 78.26 ? C3 PE8 419 A 1 
HETATM 4 O O4 PE8 . . . T 7 -16.166 15.351 37.431 1 89.56 ? O4 PE8 419 A 1 
HETATM 5 C C5 PE8 . . . T 7 -16.392 15.895 36.127 1 84.74 ? C5 PE8 419 A 1 
HETATM 6 C C6 PE8 . . . T 7 -17.775 16.542 36.021 1 87.69 ? C6 PE8 419 A 1 
HETATM 7 O O7 PE8 . . . T 7 -17.958 17.046 34.689 1 88.75 ? O7 PE8 419 A 1 
HETATM 8 C C8 PE8 . . . T 7 -18.091 15.907 33.828 1 86.59 ? C8 PE8 419 A 1 
HETATM 9 C C9 PE8 . . . T 7 -18.413 16.302 32.379 1 80.91 ? C9 PE8 419 A 1 
HETATM 10 O O10 PE8 . . . T 7 -17.386 17.116 31.795 1 86.43 ? O10 PE8 419 A 1 
HETATM 11 C C11 PE8 . . . T 7 -17.724 17.264 30.406 1 91.62 ? C11 PE8 419 A 1 
HETATM 12 C C12 PE8 . . . T 7 -16.776 16.454 29.508 1 74.78 ? C12 PE8 419 A 1 
HETATM 13 O O13 PE8 . . . T 7 -15.436 16.929 29.668 1 75.86 ? O13 PE8 419 A 1 
HETATM 14 C C14 PE8 . . . T 7 -14.393 16.124 29.081 1 76.73 ? C14 PE8 419 A 1 
HETATM 15 C C15 PE8 . . . T 7 -14.291 16.221 27.543 1 66.99 ? C15 PE8 419 A 1 
HETATM 16 O O16 PE8 . . . T 7 -15.458 15.757 26.848 1 85.04 ? O16 PE8 419 A 1 
HETATM 17 C C17 PE8 . . . T 7 -15.058 14.603 26.09 1 67.88 ? C17 PE8 419 A 1 
HETATM 18 C C18 PE8 . . . T 7 -16.241 13.973 25.343 1 74.99 ? C18 PE8 419 A 1 
HETATM 19 O O19 PE8 . . . T 7 -16.827 14.884 24.404 1 91.89 ? O19 PE8 419 A 1 
HETATM 20 C C20 PE8 . . . T 7 -16.322 14.618 23.089 1 81.11 ? C20 PE8 419 A 1 
HETATM 21 C C21 PE8 . . . T 7 -17.242 15.249 22.035 1 86.08 ? C21 PE8 419 A 1 
HETATM 22 O O22 PE8 . . . T 7 -16.736 14.973 20.723 1 87.39 ? O22 PE8 419 A 1 
HETATM 23 C C23 PE8 . . . T 7 -17.676 15.374 19.721 1 82.35 ? C23 PE8 419 A 1 
HETATM 24 C C24 PE8 . . . T 7 -17.169 14.934 18.343 1 77.03 ? C24 PE8 419 A 1 
HETATM 25 O O25 PE8 . . . T 7 -18.102 15.324 17.331 1 82.6 ? O25 PE8 419 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    23 
_model_server_stats.query_time_ms           327 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           25 
#