data_9UDE
#
_model_server_result.job_id            uEfI9GzDWM-PMKsw-72YYg 
_model_server_result.datetime_utc      '2025-07-10 20:27:05' 
_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          9ude 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":502}' 
#
_entry.id    9UDE 
#
_exptl.entry_id    9UDE 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              296.402 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'diepoxidized farnesyl acetate' 
_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          92.37 
_cell.angle_gamma         90 
_cell.entry_id            9UDE 
_cell.length_a            67.622 
_cell.length_b            52.765 
_cell.length_c            145.829 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9UDE 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C17 H28 O4' 
_chem_comp.formula_weight    296.402 
_chem_comp.id                YK6 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'diepoxidized farnesyl acetate' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '[(~{E})-5-[(2~{S},3~{S})-3-[2-[(2~{R})-3,3-dimethyloxiran-2-yl]ethyl]-3-methyl-oxiran-2-yl]-3-methyl-pent-2-enyl] ethanoate' 
#
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
C19 C14 YK6 sing 480 n n 
C07 C06 YK6 sing 481 n n 
C07 C08 YK6 sing 482 n n 
C17 C06 YK6 sing 483 n n 
O20 C14 YK6 sing 484 n n 
O20 C13 YK6 sing 485 n n 
C06 C05 YK6 doub 486 e n 
C12 C11 YK6 sing 487 n n 
C12 C13 YK6 sing 488 n n 
C09 O21 YK6 sing 489 n n 
C09 C08 YK6 sing 490 n n 
C09 C10 YK6 sing 491 n n 
C14 C13 YK6 sing 492 n n 
C14 C15 YK6 sing 493 n n 
O21 C10 YK6 sing 494 n n 
C11 C10 YK6 sing 495 n n 
C05 C04 YK6 sing 496 n n 
C10 C18 YK6 sing 497 n n 
C04 O03 YK6 sing 498 n n 
O16 C02 YK6 doub 499 n n 
O03 C02 YK6 sing 500 n n 
C02 C01 YK6 sing 501 n n 
C01 H1 YK6 sing 502 n n 
C01 H2 YK6 sing 503 n n 
C01 H3 YK6 sing 504 n n 
C04 H4 YK6 sing 505 n n 
C04 H5 YK6 sing 506 n n 
C05 H6 YK6 sing 507 n n 
C07 H7 YK6 sing 508 n n 
C07 H8 YK6 sing 509 n n 
C08 H9 YK6 sing 510 n n 
C08 H10 YK6 sing 511 n n 
C09 H11 YK6 sing 512 n n 
C11 H12 YK6 sing 513 n n 
C11 H13 YK6 sing 514 n n 
C12 H14 YK6 sing 515 n n 
C12 H15 YK6 sing 516 n n 
C13 H16 YK6 sing 517 n n 
C15 H17 YK6 sing 518 n n 
C15 H18 YK6 sing 519 n n 
C15 H19 YK6 sing 520 n n 
C17 H20 YK6 sing 521 n n 
C17 H21 YK6 sing 522 n n 
C17 H22 YK6 sing 523 n n 
C18 H23 YK6 sing 524 n n 
C18 H24 YK6 sing 525 n n 
C18 H25 YK6 sing 526 n n 
C19 H26 YK6 sing 527 n n 
C19 H27 YK6 sing 528 n n 
C19 H28 YK6 sing 529 n n 
#
_atom_sites.entry_id                     9UDE 
_atom_sites.fract_transf_matrix[1][1]    0.014788 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000612 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018952 
_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]    0.006863 
_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
C 2 FAD A 1 501 700 FAD FAD . 
D 3 YK6 A 1 502 801 YK6 EDO . 
E 4 GOL A 1 503 901 GOL GOL . 
F 5 CL A 1 504 1 CL CL . 
G 2 FAD B 1 700 700 FAD FAD . 
H 6 HOH A 1 601 23 HOH HOH . 
H 6 HOH A 2 602 3 HOH HOH . 
H 6 HOH A 3 603 1 HOH HOH . 
H 6 HOH A 4 604 30 HOH HOH . 
H 6 HOH A 5 605 36 HOH HOH . 
H 6 HOH A 6 606 47 HOH HOH . 
H 6 HOH A 7 607 48 HOH HOH . 
H 6 HOH A 8 608 49 HOH HOH . 
H 6 HOH A 9 609 31 HOH HOH . 
H 6 HOH A 10 610 9 HOH HOH . 
H 6 HOH A 11 611 26 HOH HOH . 
H 6 HOH A 12 612 69 HOH HOH . 
H 6 HOH A 13 613 5 HOH HOH . 
H 6 HOH A 14 614 15 HOH HOH . 
H 6 HOH A 15 615 19 HOH HOH . 
H 6 HOH A 16 616 8 HOH HOH . 
H 6 HOH A 17 617 60 HOH HOH . 
H 6 HOH A 18 618 10 HOH HOH . 
H 6 HOH A 19 619 42 HOH HOH . 
H 6 HOH A 20 620 4 HOH HOH . 
H 6 HOH A 21 621 29 HOH HOH . 
H 6 HOH A 22 622 6 HOH HOH . 
H 6 HOH A 23 623 43 HOH HOH . 
H 6 HOH A 24 624 27 HOH HOH . 
H 6 HOH A 25 625 24 HOH HOH . 
H 6 HOH A 26 626 52 HOH HOH . 
H 6 HOH A 27 627 7 HOH HOH . 
H 6 HOH A 28 628 68 HOH HOH . 
H 6 HOH A 29 629 2 HOH HOH . 
H 6 HOH A 30 630 18 HOH HOH . 
H 6 HOH A 31 631 22 HOH HOH . 
H 6 HOH A 32 632 54 HOH HOH . 
H 6 HOH A 33 633 20 HOH HOH . 
H 6 HOH A 34 634 57 HOH HOH . 
H 6 HOH A 35 635 17 HOH HOH . 
H 6 HOH A 36 636 28 HOH HOH . 
H 6 HOH A 37 637 63 HOH HOH . 
H 6 HOH A 38 638 58 HOH HOH . 
H 6 HOH A 39 639 37 HOH HOH . 
H 6 HOH A 40 640 32 HOH HOH . 
H 6 HOH A 41 641 70 HOH HOH . 
H 6 HOH A 42 642 50 HOH HOH . 
H 6 HOH A 43 643 41 HOH HOH . 
H 6 HOH A 44 644 64 HOH HOH . 
H 6 HOH A 45 645 38 HOH HOH . 
I 6 HOH B 1 801 12 HOH HOH . 
I 6 HOH B 2 802 55 HOH HOH . 
I 6 HOH B 3 803 59 HOH HOH . 
I 6 HOH B 4 804 11 HOH HOH . 
I 6 HOH B 5 805 34 HOH HOH . 
I 6 HOH B 6 806 71 HOH HOH . 
I 6 HOH B 7 807 33 HOH HOH . 
I 6 HOH B 8 808 62 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 C01 YK6 . . . D 3 39.623 -2.719 51.129 1 95.29 ? C01 YK6 502 A 1 
HETATM 2 C C02 YK6 . . . D 3 40.049 -3.826 50.184 1 88.5 ? C02 YK6 502 A 1 
HETATM 3 C C04 YK6 . . . D 3 38.666 -5.034 48.683 1 86.03 ? C04 YK6 502 A 1 
HETATM 4 C C05 YK6 . . . D 3 37.974 -3.857 48.047 1 77.21 ? C05 YK6 502 A 1 
HETATM 5 C C06 YK6 . . . D 3 36.853 -3.887 47.308 1 74.46 ? C06 YK6 502 A 1 
HETATM 6 C C07 YK6 . . . D 3 36.291 -2.597 46.75 1 70.95 ? C07 YK6 502 A 1 
HETATM 7 C C08 YK6 . . . D 3 36.316 -1.485 47.81 1 75.31 ? C08 YK6 502 A 1 
HETATM 8 C C09 YK6 . . . D 3 37.075 -0.248 47.344 1 86.92 ? C09 YK6 502 A 1 
HETATM 9 C C10 YK6 . . . D 3 37.683 0.663 48.277 1 84.16 ? C10 YK6 502 A 1 
HETATM 10 C C11 YK6 . . . D 3 37.93 2.099 47.819 1 85.93 ? C11 YK6 502 A 1 
HETATM 11 C C12 YK6 . . . D 3 36.667 2.828 47.325 1 83.96 ? C12 YK6 502 A 1 
HETATM 12 C C13 YK6 . . . D 3 36.517 4.228 47.915 1 93.17 ? C13 YK6 502 A 1 
HETATM 13 C C14 YK6 . . . D 3 35.624 5.223 47.375 1 87.09 ? C14 YK6 502 A 1 
HETATM 14 C C15 YK6 . . . D 3 35.225 6.399 48.252 1 58.92 ? C15 YK6 502 A 1 
HETATM 15 C C17 YK6 . . . D 3 36.079 -5.145 46.987 1 63.28 ? C17 YK6 502 A 1 
HETATM 16 C C18 YK6 . . . D 3 37.803 0.379 49.765 1 63.05 ? C18 YK6 502 A 1 
HETATM 17 C C19 YK6 . . . D 3 34.845 5.064 46.08 1 84.43 ? C19 YK6 502 A 1 
HETATM 18 O O03 YK6 . . . D 3 39.02 -4.704 50.009 1 92.69 ? O03 YK6 502 A 1 
HETATM 19 O O16 YK6 . . . D 3 41.139 -3.904 49.662 1 65.01 ? O16 YK6 502 A 1 
HETATM 20 O O20 YK6 . . . D 3 37.209 5.172 47.133 1 99.36 ? O20 YK6 502 A 1 
HETATM 21 O O21 YK6 . . . D 3 38.472 -0.419 47.396 1 83.05 ? O21 YK6 502 A 1 
#
_model_server_stats.io_time_ms              40 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           341 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           21 
#