data_5F8B # _model_server_result.job_id OmzHqKliY34Efu7-rM_QVw _model_server_result.datetime_utc '2025-03-06 21:08:56' _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 5f8b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 5F8B # _exptl.entry_id 5F8B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 399.437 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (5~{S},8~{S},9~{R})-2-[(~{E})-hex-1-enyl]-8-methoxy-3-methyl-9-oxidanyl-8-(phenylcarbonyl)-1-oxa-7-azaspiro[4.4]non-2-ene-4,6-dione _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 5F8B _cell.length_a 123.331 _cell.length_b 123.331 _cell.length_c 75.638 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5F8B _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 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 _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' 8_555 x-y,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 covale ? covale1 C SG2 GSH . A GSH 302 1_555 D C10 PZS . A PZS 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.782 ? metalc ? metalc1 B CO CO . A CO 301 1_555 E O HOH . A HOH 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc2 B CO CO . A CO 301 1_555 E O HOH . A HOH 412 11_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? # _chem_comp.formula 'C22 H25 N O6' _chem_comp.formula_weight 399.437 _chem_comp.id PZS _chem_comp.mon_nstd_flag . _chem_comp.name (5~{S},8~{S},9~{R})-2-[(~{E})-hex-1-enyl]-8-methoxy-3-methyl-9-oxidanyl-8-(phenylcarbonyl)-1-oxa-7-azaspiro[4.4]non-2-ene-4,6-dione _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 C25 C26 PZS doub 313 n y C25 C24 PZS sing 314 n y C26 C27 PZS sing 315 n y C24 C13 PZS doub 316 n y C15 C14 PZS sing 317 n n O4 C12 PZS doub 318 n n C27 C28 PZS doub 319 n y C13 C12 PZS sing 320 n n C13 C28 PZS sing 321 n y C12 C5 PZS sing 322 n n C14 C10 PZS sing 323 n n C4 O3 PZS sing 324 n n C4 C5 PZS sing 325 n n C4 C3 PZS sing 326 n n C10 C9 PZS sing 327 n n C5 O11 PZS sing 328 n n C5 N PZS sing 329 n n O C3 PZS sing 330 n n O C PZS sing 331 n n C8 C9 PZS sing 332 n n C8 C7 PZS doub 333 e n O11 C31 PZS sing 334 n n C3 C6 PZS sing 335 n n C3 C2 PZS sing 336 n n N C6 PZS sing 337 n n C6 O2 PZS doub 338 n n C C7 PZS sing 339 n n C C1 PZS doub 340 n n C2 C1 PZS sing 341 n n C2 O1 PZS doub 342 n n C1 C11 PZS sing 343 n n C10 H6 PZS sing 344 n n C10 H16 PZS sing 345 n n C14 H12 PZS sing 346 n n C14 H11 PZS sing 347 n n C15 H13 PZS sing 348 n n C15 H15 PZS sing 349 n n C15 H14 PZS sing 350 n n C9 H4 PZS sing 351 n n C9 H5 PZS sing 352 n n C8 H3 PZS sing 353 n n C7 H2 PZS sing 354 n n C11 H9 PZS sing 355 n n C11 H7 PZS sing 356 n n C11 H8 PZS sing 357 n n N H1 PZS sing 358 n n C4 H PZS sing 359 n n O3 H10 PZS sing 360 n n C31 H38 PZS sing 361 n n C31 H39 PZS sing 362 n n C31 H37 PZS sing 363 n n C28 H32 PZS sing 364 n n C27 H31 PZS sing 365 n n C26 H30 PZS sing 366 n n C25 H29 PZS sing 367 n n C24 H28 PZS sing 368 n n # _atom_sites.entry_id 5F8B _atom_sites.fract_transf_matrix[1][1] 0.008108 _atom_sites.fract_transf_matrix[1][2] 0.004681 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009363 _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] 0.013221 _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 CO A 1 301 1 CO CO . C 3 GSH A 1 302 3 GSH PZS . D 4 PZS A 1 303 3 PZS PZS . E 5 HOH A 1 401 12 HOH HOH . E 5 HOH A 2 402 8 HOH HOH . E 5 HOH A 3 403 2 HOH HOH . E 5 HOH A 4 404 10 HOH HOH . E 5 HOH A 5 405 7 HOH HOH . E 5 HOH A 6 406 3 HOH HOH . E 5 HOH A 7 407 1 HOH HOH . E 5 HOH A 8 408 6 HOH HOH . E 5 HOH A 9 409 9 HOH HOH . E 5 HOH A 10 410 4 HOH HOH . E 5 HOH A 11 411 5 HOH HOH . E 5 HOH A 12 412 11 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 C10 PZS . . . D 4 59.697 9.274 6.134 1 67.77 ? C10 PZS 303 A 1 HETATM 2 C C14 PZS . . . D 4 59.495 10.431 5.199 1 67.76 ? C14 PZS 303 A 1 HETATM 3 C C15 PZS . . . D 4 60.382 10.094 4.016 1 64.81 ? C15 PZS 303 A 1 HETATM 4 C C9 PZS . . . D 4 60.992 9.607 6.896 1 73.33 ? C9 PZS 303 A 1 HETATM 5 C C8 PZS . . . D 4 61.807 8.352 6.835 1 84.27 ? C8 PZS 303 A 1 HETATM 6 C C7 PZS . . . D 4 62.646 8.079 7.803 1 95.96 ? C7 PZS 303 A 1 HETATM 7 C C PZS . . . D 4 63.398 6.823 7.722 1 97.65 ? C PZS 303 A 1 HETATM 8 O O PZS . . . D 4 63.227 5.836 6.662 1 98.24 ? O PZS 303 A 1 HETATM 9 C C3 PZS . . . D 4 63.799 4.589 7.074 1 99.71 ? C3 PZS 303 A 1 HETATM 10 C C2 PZS . . . D 4 64.588 5.011 8.283 1 94.31 ? C2 PZS 303 A 1 HETATM 11 O O1 PZS . . . D 4 65.355 4.254 8.862 1 103.76 ? O1 PZS 303 A 1 HETATM 12 C C1 PZS . . . D 4 64.265 6.407 8.624 1 99.44 ? C1 PZS 303 A 1 HETATM 13 C C11 PZS . . . D 4 64.787 7.251 9.76 1 97.16 ? C11 PZS 303 A 1 HETATM 14 C C6 PZS . . . D 4 62.783 3.584 7.523 1 98.95 ? C6 PZS 303 A 1 HETATM 15 O O2 PZS . . . D 4 61.767 3.861 8.134 1 92.33 ? O2 PZS 303 A 1 HETATM 16 N N PZS . . . D 4 63.179 2.383 7.136 1 105.16 ? N PZS 303 A 1 HETATM 17 C C5 PZS . . . D 4 64.33 2.366 6.263 1 100.75 ? C5 PZS 303 A 1 HETATM 18 C C4 PZS . . . D 4 64.652 3.85 6.03 1 96.15 ? C4 PZS 303 A 1 HETATM 19 O O3 PZS . . . D 4 66.062 4.134 6.088 1 97.84 ? O3 PZS 303 A 1 HETATM 20 O O11 PZS . . . D 4 65.351 1.596 6.899 1 107.28 ? O11 PZS 303 A 1 HETATM 21 C C31 PZS . . . D 4 65.12 0.2 7.105 1 90.62 ? C31 PZS 303 A 1 HETATM 22 C C12 PZS . . . D 4 64.181 1.813 4.871 1 100.03 ? C12 PZS 303 A 1 HETATM 23 O O4 PZS . . . D 4 65.15 1.954 4.142 1 107.46 ? O4 PZS 303 A 1 HETATM 24 C C13 PZS . . . D 4 62.985 1.089 4.312 1 97.56 ? C13 PZS 303 A 1 HETATM 25 C C28 PZS . . . D 4 61.719 0.947 4.922 1 91.26 ? C28 PZS 303 A 1 HETATM 26 C C27 PZS . . . D 4 60.692 0.236 4.3 1 84.58 ? C27 PZS 303 A 1 HETATM 27 C C26 PZS . . . D 4 60.937 -0.341 3.066 1 89.88 ? C26 PZS 303 A 1 HETATM 28 C C25 PZS . . . D 4 62.195 -0.201 2.46 1 94.71 ? C25 PZS 303 A 1 HETATM 29 C C24 PZS . . . D 4 63.214 0.506 3.073 1 87.7 ? C24 PZS 303 A 1 HETATM 30 H H6 PZS . . . D 4 59.903 8.388 5.518 1 81.33 ? H6 PZS 303 A 1 HETATM 31 H H12 PZS . . . D 4 58.45 10.506 4.893 1 81.31 ? H12 PZS 303 A 1 HETATM 32 H H11 PZS . . . D 4 59.806 11.368 5.665 1 81.31 ? H11 PZS 303 A 1 HETATM 33 H H13 PZS . . . D 4 60.308 10.861 3.29 1 77.78 ? H13 PZS 303 A 1 HETATM 34 H H15 PZS . . . D 4 60.071 9.175 3.592 1 77.78 ? H15 PZS 303 A 1 HETATM 35 H H14 PZS . . . D 4 61.387 10.011 4.34 1 77.78 ? H14 PZS 303 A 1 HETATM 36 H H4 PZS . . . D 4 61.52 10.434 6.416 1 87.99 ? H4 PZS 303 A 1 HETATM 37 H H5 PZS . . . D 4 60.773 9.874 7.932 1 87.99 ? H5 PZS 303 A 1 HETATM 38 H H3 PZS . . . D 4 61.666 7.654 6.027 1 101.13 ? H3 PZS 303 A 1 HETATM 39 H H2 PZS . . . D 4 62.792 8.762 8.622 1 115.15 ? H2 PZS 303 A 1 HETATM 40 H H9 PZS . . . D 4 65.839 7.339 9.68 1 116.59 ? H9 PZS 303 A 1 HETATM 41 H H7 PZS . . . D 4 64.347 8.214 9.715 1 116.59 ? H7 PZS 303 A 1 HETATM 42 H H8 PZS . . . D 4 64.54 6.793 10.682 1 116.59 ? H8 PZS 303 A 1 HETATM 43 H H1 PZS . . . D 4 62.671 1.537 7.351 1 126.2 ? H1 PZS 303 A 1 HETATM 44 H H PZS . . . D 4 64.275 4.123 5.034 1 115.38 ? H PZS 303 A 1 HETATM 45 H H10 PZS . . . D 4 66.522 3.623 5.408 1 117.41 ? H10 PZS 303 A 1 HETATM 46 H H38 PZS . . . D 4 64.966 -0.273 6.17 1 108.74 ? H38 PZS 303 A 1 HETATM 47 H H39 PZS . . . D 4 65.961 -0.23 7.584 1 108.74 ? H39 PZS 303 A 1 HETATM 48 H H37 PZS . . . D 4 64.262 0.07 7.712 1 108.74 ? H37 PZS 303 A 1 HETATM 49 H H32 PZS . . . D 4 61.542 1.399 5.89 1 109.52 ? H32 PZS 303 A 1 HETATM 50 H H31 PZS . . . D 4 59.724 0.135 4.775 1 101.5 ? H31 PZS 303 A 1 HETATM 51 H H30 PZS . . . D 4 60.153 -0.894 2.562 1 107.85 ? H30 PZS 303 A 1 HETATM 52 H H29 PZS . . . D 4 62.372 -0.654 1.492 1 113.65 ? H29 PZS 303 A 1 HETATM 53 H H28 PZS . . . D 4 64.181 0.599 2.594 1 105.23 ? H28 PZS 303 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 53 #