data_5LGA
#
_model_server_result.job_id            -KXVUXgbYX_lt_wGXK7vwg 
_model_server_result.datetime_utc      '2024-10-28 02:24:11' 
_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          5lga 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    5LGA 
#
_exptl.entry_id    5LGA 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              602.648 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (1~{R},3~{S},5~{Z})-5-[2-[(1~{R},3~{a}~{S},7~{a}~{R})-7~{a}-methyl-1-[(6~{R})-1,1,1-tris(fluoranyl)-10-methyl-2,10-bis(oxidanyl)-2-(trifluoromethyl)undeca-3,8-diyn-6-yl]-2,3,3~{a},5,6,7-hexahydro-1~{H}-inden-4-ylidene]ethylidene]-4-methylidene-cyclohexane-1,3-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         120 
_cell.entry_id            5LGA 
_cell.length_a            65.86 
_cell.length_b            65.86 
_cell.length_c            263.83 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5LGA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        179 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 10_665 -y+1,-x+1,-z+1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 32.93 57.036433 43.971667 
#
_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 
#
_chem_comp.formula           'C32 H40 F6 O4' 
_chem_comp.formula_weight    602.648 
_chem_comp.id                6VH 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (1~{R},3~{S},5~{Z})-5-[2-[(1~{R},3~{a}~{S},7~{a}~{R})-7~{a}-methyl-1-[(6~{R})-1,1,1-tris(fluoranyl)-10-methyl-2,10-bis(oxidanyl)-2-(trifluoromethyl)undeca-3,8-diyn-6-yl]-2,3,3~{a},5,6,7-hexahydro-1~{H}-inden-4-ylidene]ethylidene]-4-methylidene-cyclohexane-1,3-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
F1 C26 6VH sing 1 n n 
F4 C25 6VH sing 2 n n 
F3 C26 6VH sing 3 n n 
F6 C25 6VH sing 4 n n 
C26 F2 6VH sing 5 n n 
C26 C24 6VH sing 6 n n 
C25 C24 6VH sing 7 n n 
C25 F5 6VH sing 8 n n 
C24 O3 6VH sing 9 n n 
C24 C23 6VH sing 10 n n 
C23 C22 6VH trip 11 n n 
C22 C21 6VH sing 12 n n 
C18 C13 6VH sing 13 n n 
C21 C20 6VH sing 14 n n 
C11 C12 6VH sing 15 n n 
C11 C9 6VH sing 16 n n 
C12 C13 6VH sing 17 n n 
C33 C10 6VH doub 18 n n 
C20 C27 6VH sing 19 n n 
C20 C17 6VH sing 20 n n 
C27 C28 6VH sing 21 n n 
C13 C17 6VH sing 22 n n 
C13 C14 6VH sing 23 n n 
C4 C3 6VH sing 24 n n 
C4 C5 6VH sing 25 n n 
C2 C3 6VH sing 26 n n 
C2 C1 6VH sing 27 n n 
O1 C1 6VH sing 28 n n 
C17 C16 6VH sing 29 n n 
C10 C5 6VH sing 30 n n 
C10 C1 6VH sing 31 n n 
C6 C5 6VH doub 32 z n 
C6 C7 6VH sing 33 n n 
C3 O2 6VH sing 34 n n 
C9 C8 6VH sing 35 n n 
C28 C29 6VH trip 36 n n 
C7 C8 6VH doub 37 e n 
C29 C30 6VH sing 38 n n 
C8 C14 6VH sing 39 n n 
C14 C15 6VH sing 40 n n 
C16 C15 6VH sing 41 n n 
O4 C30 6VH sing 42 n n 
C31 C30 6VH sing 43 n n 
C30 C32 6VH sing 44 n n 
C1 H1 6VH sing 45 n n 
O1 H2 6VH sing 46 n n 
C2 H3 6VH sing 47 n n 
C2 H4 6VH sing 48 n n 
O2 H5 6VH sing 49 n n 
C3 H6 6VH sing 50 n n 
O3 H7 6VH sing 51 n n 
C4 H8 6VH sing 52 n n 
C4 H9 6VH sing 53 n n 
O4 H10 6VH sing 54 n n 
C6 H12 6VH sing 55 n n 
C7 H14 6VH sing 56 n n 
C9 H17 6VH sing 57 n n 
C9 H18 6VH sing 58 n n 
C11 H20 6VH sing 59 n n 
C11 H21 6VH sing 60 n n 
C12 H22 6VH sing 61 n n 
C12 H23 6VH sing 62 n n 
C14 H24 6VH sing 63 n n 
C15 H25 6VH sing 64 n n 
C15 H26 6VH sing 65 n n 
C16 H27 6VH sing 66 n n 
C16 H28 6VH sing 67 n n 
C17 H29 6VH sing 68 n n 
C18 H30 6VH sing 69 n n 
C18 H31 6VH sing 70 n n 
C18 H32 6VH sing 71 n n 
C20 H33 6VH sing 72 n n 
C21 H34 6VH sing 73 n n 
C21 H35 6VH sing 74 n n 
C27 H36 6VH sing 75 n n 
C27 H37 6VH sing 76 n n 
C31 H40 6VH sing 77 n n 
C31 H41 6VH sing 78 n n 
C31 H42 6VH sing 79 n n 
C32 H43 6VH sing 80 n n 
C32 H44 6VH sing 81 n n 
C32 H45 6VH sing 82 n n 
C33 H46 6VH sing 83 n n 
C33 H47 6VH sing 84 n n 
#
_atom_sites.entry_id                     5LGA 
_atom_sites.fract_transf_matrix[1][1]    0.015184 
_atom_sites.fract_transf_matrix[1][2]    0.008766 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017533 
_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]    0.00379 
_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 3 6VH A 1 501 1 6VH H97 . 
D 4 HOH A 1 601 1 HOH HOH . 
D 4 HOH A 2 602 52 HOH HOH . 
D 4 HOH A 3 603 49 HOH HOH . 
D 4 HOH A 4 604 51 HOH HOH . 
D 4 HOH A 5 605 4 HOH HOH . 
D 4 HOH A 6 606 45 HOH HOH . 
D 4 HOH A 7 607 29 HOH HOH . 
D 4 HOH A 8 608 2 HOH HOH . 
D 4 HOH A 9 609 46 HOH HOH . 
D 4 HOH A 10 610 50 HOH HOH . 
D 4 HOH A 11 611 33 HOH HOH . 
D 4 HOH A 12 612 53 HOH HOH . 
D 4 HOH A 13 613 17 HOH HOH . 
D 4 HOH A 14 614 48 HOH HOH . 
D 4 HOH A 15 615 41 HOH HOH . 
D 4 HOH A 16 616 9 HOH HOH . 
D 4 HOH A 17 617 25 HOH HOH . 
D 4 HOH A 18 618 22 HOH HOH . 
D 4 HOH A 19 619 36 HOH HOH . 
D 4 HOH A 20 620 5 HOH HOH . 
D 4 HOH A 21 621 54 HOH HOH . 
D 4 HOH A 22 622 31 HOH HOH . 
D 4 HOH A 23 623 30 HOH HOH . 
D 4 HOH A 24 624 15 HOH HOH . 
D 4 HOH A 25 625 39 HOH HOH . 
D 4 HOH A 26 626 8 HOH HOH . 
D 4 HOH A 27 627 21 HOH HOH . 
D 4 HOH A 28 628 12 HOH HOH . 
D 4 HOH A 29 629 26 HOH HOH . 
D 4 HOH A 30 630 24 HOH HOH . 
D 4 HOH A 31 631 28 HOH HOH . 
D 4 HOH A 32 632 10 HOH HOH . 
D 4 HOH A 33 633 44 HOH HOH . 
D 4 HOH A 34 634 42 HOH HOH . 
D 4 HOH A 35 635 47 HOH HOH . 
D 4 HOH A 36 636 11 HOH HOH . 
D 4 HOH A 37 637 23 HOH HOH . 
D 4 HOH A 38 638 3 HOH HOH . 
D 4 HOH A 39 639 13 HOH HOH . 
D 4 HOH A 40 640 38 HOH HOH . 
D 4 HOH A 41 641 35 HOH HOH . 
D 4 HOH A 42 642 19 HOH HOH . 
D 4 HOH A 43 643 14 HOH HOH . 
D 4 HOH A 44 644 16 HOH HOH . 
D 4 HOH A 45 645 40 HOH HOH . 
D 4 HOH A 46 646 34 HOH HOH . 
D 4 HOH A 47 647 32 HOH HOH . 
D 4 HOH A 48 648 20 HOH HOH . 
D 4 HOH A 49 649 43 HOH HOH . 
D 4 HOH A 50 650 18 HOH HOH . 
E 4 HOH B 1 701 6 HOH HOH . 
E 4 HOH B 2 702 7 HOH HOH . 
E 4 HOH B 3 703 27 HOH HOH . 
E 4 HOH B 4 704 37 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 6VH . . . C 3 2.711 39.849 38.733 1 68.71 ? C1 6VH 501 A 1 
HETATM 2 F F1 6VH . . . C 3 3.904 28.058 31.398 1 105.25 ? F1 6VH 501 A 1 
HETATM 3 O O1 6VH . . . C 3 4.04 40.058 38.304 1 72.77 ? O1 6VH 501 A 1 
HETATM 4 C C2 6VH . . . C 3 1.876 40.921 38.065 1 65.22 ? C2 6VH 501 A 1 
HETATM 5 F F2 6VH . . . C 3 2.383 28.052 32.909 1 105.24 ? F2 6VH 501 A 1 
HETATM 6 O O2 6VH . . . C 3 0.515 40.738 39.996 1 67.66 ? O2 6VH 501 A 1 
HETATM 7 C C3 6VH . . . C 3 0.451 40.777 38.55 1 68.44 ? C3 6VH 501 A 1 
HETATM 8 F F3 6VH . . . C 3 3.224 29.929 32.15 1 97.91 ? F3 6VH 501 A 1 
HETATM 9 O O3 6VH . . . C 3 4.856 27.113 33.707 1 89.49 ? O3 6VH 501 A 1 
HETATM 10 C C4 6VH . . . C 3 -0.043 39.427 38.022 1 68.39 ? C4 6VH 501 A 1 
HETATM 11 F F4 6VH . . . C 3 6.377 28.475 31.843 1 90.66 ? F4 6VH 501 A 1 
HETATM 12 O O4 6VH . . . C 3 3.964 25.756 40.085 1 113.19 ? O4 6VH 501 A 1 
HETATM 13 C C5 6VH . . . C 3 0.653 38.261 38.72 1 71.16 ? C5 6VH 501 A 1 
HETATM 14 F F5 6VH . . . C 3 6.896 29.095 33.842 1 87.68 ? F5 6VH 501 A 1 
HETATM 15 C C6 6VH . . . C 3 0.107 37.049 38.528 1 73.07 ? C6 6VH 501 A 1 
HETATM 16 F F6 6VH . . . C 3 5.677 30.408 32.486 1 78.86 ? F6 6VH 501 A 1 
HETATM 17 C C7 6VH . . . C 3 0.646 35.723 38.848 1 73.29 ? C7 6VH 501 A 1 
HETATM 18 C C8 6VH . . . C 3 -0.026 34.607 39.186 1 76.12 ? C8 6VH 501 A 1 
HETATM 19 C C9 6VH . . . C 3 -1.375 34.243 38.564 1 75.69 ? C9 6VH 501 A 1 
HETATM 20 C C10 6VH . . . C 3 2.21 38.402 38.513 1 68.22 ? C10 6VH 501 A 1 
HETATM 21 C C11 6VH . . . C 3 -1.353 33.529 37.23 1 74.69 ? C11 6VH 501 A 1 
HETATM 22 C C12 6VH . . . C 3 -0.477 32.27 37.301 1 76.22 ? C12 6VH 501 A 1 
HETATM 23 C C13 6VH . . . C 3 0.961 32.521 37.834 1 76.8 ? C13 6VH 501 A 1 
HETATM 24 C C14 6VH . . . C 3 0.777 33.283 39.216 1 79.11 ? C14 6VH 501 A 1 
HETATM 25 C C15 6VH . . . C 3 2.209 33.209 39.81 1 78.17 ? C15 6VH 501 A 1 
HETATM 26 C C16 6VH . . . C 3 2.59 31.745 39.517 1 79.7 ? C16 6VH 501 A 1 
HETATM 27 C C17 6VH . . . C 3 1.637 31.212 38.404 1 82.95 ? C17 6VH 501 A 1 
HETATM 28 C C18 6VH . . . C 3 1.758 33.264 36.705 1 72.03 ? C18 6VH 501 A 1 
HETATM 29 C C20 6VH . . . C 3 2.139 30.144 37.38 1 90.29 ? C20 6VH 501 A 1 
HETATM 30 C C21 6VH . . . C 3 3.665 30.196 37.115 1 90.18 ? C21 6VH 501 A 1 
HETATM 31 C C22 6VH . . . C 3 4.039 29.735 35.776 1 88.95 ? C22 6VH 501 A 1 
HETATM 32 C C23 6VH . . . C 3 4.321 29.229 34.773 1 89.79 ? C23 6VH 501 A 1 
HETATM 33 C C24 6VH . . . C 3 4.652 28.513 33.523 1 91.7 ? C24 6VH 501 A 1 
HETATM 34 C C25 6VH . . . C 3 5.924 29.142 32.912 1 87.72 ? C25 6VH 501 A 1 
HETATM 35 C C26 6VH . . . C 3 3.506 28.66 32.506 1 100.49 ? C26 6VH 501 A 1 
HETATM 36 C C27 6VH . . . C 3 1.656 28.704 37.728 1 94.74 ? C27 6VH 501 A 1 
HETATM 37 C C28 6VH . . . C 3 2.536 27.832 38.637 1 100.49 ? C28 6VH 501 A 1 
HETATM 38 C C29 6VH . . . C 3 1.873 26.56 39.182 1 108.88 ? C29 6VH 501 A 1 
HETATM 39 C C30 6VH . . . C 3 2.545 25.736 40.309 1 113.1 ? C30 6VH 501 A 1 
HETATM 40 C C31 6VH . . . C 3 2.118 24.28 40.233 1 117.39 ? C31 6VH 501 A 1 
HETATM 41 C C32 6VH . . . C 3 2.301 26.267 41.722 1 111.64 ? C32 6VH 501 A 1 
HETATM 42 C C33 6VH . . . C 3 2.656 37.91 37.366 1 67.08 ? C33 6VH 501 A 1 
#
_model_server_stats.io_time_ms              70 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           319 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           42 
#