data_4DQM
#
_model_server_result.job_id            LEov7eNNAT-o3aTGmXMtxQ 
_model_server_result.datetime_utc      '2025-03-04 23:13:03' 
_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          4dqm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":501}' 
#
_entry.id    4DQM 
#
_exptl.entry_id    4DQM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              386.567 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (5S)-4-[(3E,7E)-4,8-dimethyl-10-(2,6,6-trimethylcyclohex-1-en-1-yl)deca-3,7-dien-1-yl]-5-hydroxyfuran-2(5H)-one 
_entity.pdbx_number_of_molecules    2 
_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            4DQM 
_cell.length_a            54.12 
_cell.length_b            104.46 
_cell.length_c            113.48 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4DQM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 2 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,G 1 1 
C,D,F,H 2 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
? 3 E N N 
? 3 F N N 
#
_chem_comp.formula           'C25 H38 O3' 
_chem_comp.formula_weight    386.567 
_chem_comp.id                LUF 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (5S)-4-[(3E,7E)-4,8-dimethyl-10-(2,6,6-trimethylcyclohex-1-en-1-yl)deca-3,7-dien-1-yl]-5-hydroxyfuran-2(5H)-one 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Luffariellolide 
#
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
O3 C25 LUF doub 194 n n 
C25 O1 LUF sing 195 n n 
C25 C24 LUF sing 196 n n 
O1 C23 LUF sing 197 n n 
C24 C22 LUF doub 198 n n 
C23 C22 LUF sing 199 n n 
C23 O2 LUF sing 200 n n 
C22 C20 LUF sing 201 n n 
C20 C18 LUF sing 202 n n 
C18 C19 LUF sing 203 n n 
C21 C17 LUF sing 204 n n 
C19 C17 LUF doub 205 e n 
C17 C16 LUF sing 206 n n 
C16 C15 LUF sing 207 n n 
C15 C13 LUF sing 208 n n 
C13 C12 LUF doub 209 e n 
C14 C12 LUF sing 210 n n 
C12 C10 LUF sing 211 n n 
C10 C7 LUF sing 212 n n 
C8 C1 LUF sing 213 n n 
C7 C3 LUF sing 214 n n 
C1 C9 LUF sing 215 n n 
C1 C3 LUF sing 216 n n 
C1 C2 LUF sing 217 n n 
C3 C6 LUF doub 218 n n 
C2 C4 LUF sing 219 n n 
C4 C5 LUF sing 220 n n 
C6 C5 LUF sing 221 n n 
C6 C11 LUF sing 222 n n 
C4 H1 LUF sing 223 n n 
C4 H2 LUF sing 224 n n 
C5 H3 LUF sing 225 n n 
C5 H4 LUF sing 226 n n 
C7 H6 LUF sing 227 n n 
C7 H7 LUF sing 228 n n 
C8 H8 LUF sing 229 n n 
C8 H9 LUF sing 230 n n 
C8 H10 LUF sing 231 n n 
C10 H11 LUF sing 232 n n 
C10 H12 LUF sing 233 n n 
C13 H13 LUF sing 234 n n 
C15 H14 LUF sing 235 n n 
C15 H15 LUF sing 236 n n 
C20 H16 LUF sing 237 n n 
C20 H17 LUF sing 238 n n 
C21 H18 LUF sing 239 n n 
C21 H19 LUF sing 240 n n 
C21 H20 LUF sing 241 n n 
C24 H22 LUF sing 242 n n 
C23 H24 LUF sing 243 n n 
O2 H25 LUF sing 244 n n 
C18 H26 LUF sing 245 n n 
C18 H27 LUF sing 246 n n 
C19 H28 LUF sing 247 n n 
C16 H29 LUF sing 248 n n 
C16 H30 LUF sing 249 n n 
C14 H31 LUF sing 250 n n 
C14 H32 LUF sing 251 n n 
C14 H33 LUF sing 252 n n 
C9 H35 LUF sing 253 n n 
C9 H36 LUF sing 254 n n 
C9 H37 LUF sing 255 n n 
C11 H38 LUF sing 256 n n 
C11 H39 LUF sing 257 n n 
C11 H40 LUF sing 258 n n 
C2 H41 LUF sing 259 n n 
C2 H42 LUF sing 260 n n 
#
_atom_sites.entry_id                     4DQM 
_atom_sites.fract_transf_matrix[1][1]    0.018477 
_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]    0.009573 
_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]    0.008812 
_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
E 3 LUF A 1 501 1 LUF LIG . 
F 3 LUF C 1 501 1 LUF LIG . 
G 4 HOH A 1 601 8 HOH HOH . 
G 4 HOH A 2 602 9 HOH HOH . 
G 4 HOH A 3 603 10 HOH HOH . 
G 4 HOH A 4 604 11 HOH HOH . 
G 4 HOH A 5 605 19 HOH HOH . 
G 4 HOH A 6 606 20 HOH HOH . 
G 4 HOH A 7 607 22 HOH HOH . 
G 4 HOH A 8 608 24 HOH HOH . 
G 4 HOH A 9 609 25 HOH HOH . 
G 4 HOH A 10 610 26 HOH HOH . 
G 4 HOH A 11 611 28 HOH HOH . 
G 4 HOH A 12 612 30 HOH HOH . 
H 4 HOH C 1 601 1 HOH HOH . 
H 4 HOH C 2 602 2 HOH HOH . 
H 4 HOH C 3 603 3 HOH HOH . 
H 4 HOH C 4 604 4 HOH HOH . 
H 4 HOH C 5 605 5 HOH HOH . 
H 4 HOH C 6 606 6 HOH HOH . 
H 4 HOH C 7 607 7 HOH HOH . 
H 4 HOH C 8 608 12 HOH HOH . 
H 4 HOH C 9 609 13 HOH HOH . 
H 4 HOH C 10 610 14 HOH HOH . 
H 4 HOH C 11 611 15 HOH HOH . 
H 4 HOH C 12 612 16 HOH HOH . 
H 4 HOH C 13 613 17 HOH HOH . 
H 4 HOH C 14 614 18 HOH HOH . 
H 4 HOH C 15 615 21 HOH HOH . 
H 4 HOH C 16 616 23 HOH HOH . 
H 4 HOH C 17 617 27 HOH HOH . 
H 4 HOH C 18 618 29 HOH HOH . 
H 4 HOH C 19 619 31 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 C4 LUF . . . E 3 -2.175 -20.25 20.63 1 59.49 ? C4 LUF 501 A 1 
HETATM 2 C C5 LUF . . . E 3 -3.343 -20.294 21.582 1 57.97 ? C5 LUF 501 A 1 
HETATM 3 C C6 LUF . . . E 3 -4.113 -21.448 21.052 1 57.25 ? C6 LUF 501 A 1 
HETATM 4 C C7 LUF . . . E 3 -4.949 -21.162 18.734 1 58.42 ? C7 LUF 501 A 1 
HETATM 5 C C8 LUF . . . E 3 -2.426 -21.872 17.931 1 50.64 ? C8 LUF 501 A 1 
HETATM 6 C C10 LUF . . . E 3 -5.354 -22.244 17.743 1 59.6 ? C10 LUF 501 A 1 
HETATM 7 C C13 LUF . . . E 3 -7.084 -22.453 16.031 1 43.63 ? C13 LUF 501 A 1 
HETATM 8 C C15 LUF . . . E 3 -7.938 -21.942 14.926 1 41.4 ? C15 LUF 501 A 1 
HETATM 9 C C17 LUF . . . E 3 -8.25 -21.858 12.48 1 43.02 ? C17 LUF 501 A 1 
HETATM 10 C C20 LUF . . . E 3 -10.07 -20.662 10.924 1 44.86 ? C20 LUF 501 A 1 
HETATM 11 C C21 LUF . . . E 3 -7.819 -20.877 11.447 1 37.35 ? C21 LUF 501 A 1 
HETATM 12 C C22 LUF . . . E 3 -9.258 -20.711 9.67 1 48.41 ? C22 LUF 501 A 1 
HETATM 13 C C24 LUF . . . E 3 -9.149 -21.771 8.885 1 41.63 ? C24 LUF 501 A 1 
HETATM 14 O O3 LUF . . . E 3 -7.862 -22.037 6.918 1 51.14 ? O3 LUF 501 A 1 
HETATM 15 C C25 LUF . . . E 3 -8.177 -21.367 7.898 1 52.13 ? C25 LUF 501 A 1 
HETATM 16 O O1 LUF . . . E 3 -7.641 -20.054 8.237 1 49.44 ? O1 LUF 501 A 1 
HETATM 17 C C23 LUF . . . E 3 -8.493 -19.513 9.235 1 49.28 ? C23 LUF 501 A 1 
HETATM 18 O O2 LUF . . . E 3 -7.798 -18.884 10.302 1 38.38 ? O2 LUF 501 A 1 
HETATM 19 C C18 LUF . . . E 3 -10.429 -22.038 11.363 1 45.86 ? C18 LUF 501 A 1 
HETATM 20 C C19 LUF . . . E 3 -9.456 -22.382 12.438 1 46.5 ? C19 LUF 501 A 1 
HETATM 21 C C16 LUF . . . E 3 -7.333 -22.27 13.585 1 36.68 ? C16 LUF 501 A 1 
HETATM 22 C C12 LUF . . . E 3 -6.2 -21.678 16.638 1 52.71 ? C12 LUF 501 A 1 
HETATM 23 C C14 LUF . . . E 3 -6.031 -20.263 16.239 1 45.4 ? C14 LUF 501 A 1 
HETATM 24 C C3 LUF . . . E 3 -3.949 -21.657 19.761 1 56.03 ? C3 LUF 501 A 1 
HETATM 25 C C1 LUF . . . E 3 -2.677 -22.285 19.352 1 51.57 ? C1 LUF 501 A 1 
HETATM 26 C C9 LUF . . . E 3 -2.718 -23.788 19.495 1 55.14 ? C9 LUF 501 A 1 
HETATM 27 C C11 LUF . . . E 3 -4.971 -22.294 21.93 1 58.66 ? C11 LUF 501 A 1 
HETATM 28 C C2 LUF . . . E 3 -1.706 -21.665 20.311 1 52.88 ? C2 LUF 501 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           20 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           223 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           28 
#