data_5JO1 # _model_server_result.job_id ODH6TMaKdDV7TFnQ1nDeEg _model_server_result.datetime_utc '2024-11-18 10:46:43' _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 5jo1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":800}' # _entry.id 5JO1 # _exptl.entry_id 5JO1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 282.332 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(3S,4E)-5-[(1R,5R,8S)-8-hydroxy-1,5-dimethyl-3-oxo-6-oxabicyclo[3.2.1]octan-8-yl]-3-methylpent-4-enoic acid' _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 5JO1 _cell.length_a 45.63 _cell.length_b 75.45 _cell.length_c 168.6 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JO1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 2 21' # _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 _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 4 _struct_asym.id E _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 OD1 ASP 72 B ASP 243 1_555 C MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.901 ? metalc ? metalc2 A OD2 ASP 72 B ASP 243 1_555 C MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc3 A OD1 ASP 72 B ASP 243 1_555 D MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? metalc ? metalc4 A O GLY 73 B GLY 244 1_555 D MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? metalc ? metalc5 A OD1 ASP 261 B ASP 432 1_555 C MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc6 A OD1 ASP 321 B ASP 492 1_555 C MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.927 ? metalc ? metalc7 A OD2 ASP 321 B ASP 492 1_555 C MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc8 C MG MG . B MG 601 1_555 F O HOH . B HOH 710 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc9 D MG MG . B MG 602 1_555 F O HOH . B HOH 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? metalc ? metalc10 D MG MG . B MG 602 1_555 F O HOH . B HOH 710 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? # _chem_comp.formula 'C15 H22 O5' _chem_comp.formula_weight 282.332 _chem_comp.id 6LM _chem_comp.mon_nstd_flag . _chem_comp.name '(3S,4E)-5-[(1R,5R,8S)-8-hydroxy-1,5-dimethyl-3-oxo-6-oxabicyclo[3.2.1]octan-8-yl]-3-methylpent-4-enoic acid' _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 O06 C04 6LM doub 1 n n O05 C04 6LM sing 2 n n C04 C03 6LM sing 3 n n C19 C10 6LM sing 4 n n C11 C10 6LM sing 5 n n C11 C12 6LM sing 6 n n C03 C02 6LM sing 7 n n C10 C17 6LM sing 8 n n C10 C09 6LM sing 9 n n C07 C02 6LM sing 10 n n C07 C08 6LM doub 11 e n O13 C12 6LM doub 12 n n C02 C01 6LM sing 13 n n C17 O16 6LM sing 14 n n C12 C14 6LM sing 15 n n C09 C08 6LM sing 16 n n C09 O20 6LM sing 17 n n C09 C15 6LM sing 18 n n C14 C15 6LM sing 19 n n O16 C15 6LM sing 20 n n C15 C18 6LM sing 21 n n C17 H1 6LM sing 22 n n C17 H2 6LM sing 23 n n C01 H3 6LM sing 24 n n C01 H4 6LM sing 25 n n C01 H5 6LM sing 26 n n C02 H6 6LM sing 27 n n C03 H7 6LM sing 28 n n C03 H8 6LM sing 29 n n O05 H9 6LM sing 30 n n C07 H10 6LM sing 31 n n C08 H11 6LM sing 32 n n C11 H12 6LM sing 33 n n C11 H13 6LM sing 34 n n C14 H14 6LM sing 35 n n C14 H15 6LM sing 36 n n C18 H16 6LM sing 37 n n C18 H17 6LM sing 38 n n C18 H18 6LM sing 39 n n C19 H19 6LM sing 40 n n C19 H20 6LM sing 41 n n C19 H21 6LM sing 42 n n O20 H22 6LM sing 43 n n # _atom_sites.entry_id 5JO1 _atom_sites.fract_transf_matrix[1][1] 0.021915 _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] 0.013254 _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] 0.005931 _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 MG B 1 601 507 MG MG . D 3 MG B 1 602 508 MG MG . E 4 6LM A 1 800 800 6LM LIG . F 5 HOH B 1 701 1 HOH HOH . F 5 HOH B 2 702 53 HOH HOH . F 5 HOH B 3 703 30 HOH HOH . F 5 HOH B 4 704 2 HOH HOH . F 5 HOH B 5 705 21 HOH HOH . F 5 HOH B 6 706 25 HOH HOH . F 5 HOH B 7 707 44 HOH HOH . F 5 HOH B 8 708 27 HOH HOH . F 5 HOH B 9 709 4 HOH HOH . F 5 HOH B 10 710 22 HOH HOH . F 5 HOH B 11 711 47 HOH HOH . F 5 HOH B 12 712 3 HOH HOH . F 5 HOH B 13 713 51 HOH HOH . F 5 HOH B 14 714 33 HOH HOH . F 5 HOH B 15 715 6 HOH HOH . F 5 HOH B 16 716 19 HOH HOH . F 5 HOH B 17 717 17 HOH HOH . F 5 HOH B 18 718 8 HOH HOH . F 5 HOH B 19 719 45 HOH HOH . F 5 HOH B 20 720 12 HOH HOH . F 5 HOH B 21 721 49 HOH HOH . F 5 HOH B 22 722 14 HOH HOH . F 5 HOH B 23 723 31 HOH HOH . F 5 HOH B 24 724 55 HOH HOH . F 5 HOH B 25 725 18 HOH HOH . F 5 HOH B 26 726 43 HOH HOH . G 5 HOH A 1 901 38 HOH HOH . G 5 HOH A 2 902 39 HOH HOH . G 5 HOH A 3 903 26 HOH HOH . G 5 HOH A 4 904 5 HOH HOH . G 5 HOH A 5 905 28 HOH HOH . G 5 HOH A 6 906 20 HOH HOH . G 5 HOH A 7 907 11 HOH HOH . G 5 HOH A 8 908 37 HOH HOH . G 5 HOH A 9 909 7 HOH HOH . G 5 HOH A 10 910 15 HOH HOH . G 5 HOH A 11 911 10 HOH HOH . G 5 HOH A 12 912 29 HOH HOH . G 5 HOH A 13 913 32 HOH HOH . G 5 HOH A 14 914 36 HOH HOH . G 5 HOH A 15 915 41 HOH HOH . G 5 HOH A 16 916 35 HOH HOH . G 5 HOH A 17 917 13 HOH HOH . G 5 HOH A 18 918 16 HOH HOH . G 5 HOH A 19 919 50 HOH HOH . G 5 HOH A 20 920 23 HOH HOH . G 5 HOH A 21 921 48 HOH HOH . G 5 HOH A 22 922 40 HOH HOH . G 5 HOH A 23 923 42 HOH HOH . G 5 HOH A 24 924 46 HOH HOH . G 5 HOH A 25 925 54 HOH HOH . G 5 HOH A 26 926 9 HOH HOH . G 5 HOH A 27 927 52 HOH HOH . G 5 HOH A 28 928 34 HOH HOH . G 5 HOH A 29 929 24 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 6LM . . . E 4 15.413 -51.582 -27.658 1 35.62 ? C10 6LM 800 A 1 HETATM 2 C C15 6LM . . . E 4 16.004 -49.584 -26.54 1 46.19 ? C15 6LM 800 A 1 HETATM 3 C C17 6LM . . . E 4 14.929 -50.335 -28.421 1 35.48 ? C17 6LM 800 A 1 HETATM 4 C C01 6LM . . . E 4 17.436 -53.549 -23.492 1 27.5 ? C01 6LM 800 A 1 HETATM 5 C C02 6LM . . . E 4 15.951 -53.437 -23.456 1 26.34 ? C02 6LM 800 A 1 HETATM 6 C C03 6LM . . . E 4 15.299 -53.704 -22.277 1 37.22 ? C03 6LM 800 A 1 HETATM 7 C C04 6LM . . . E 4 13.81 -53.725 -22.18 1 39.74 ? C04 6LM 800 A 1 HETATM 8 O O05 6LM . . . E 4 13.214 -54.79 -21.878 1 39.12 1 O05 6LM 800 A 1 HETATM 9 O O06 6LM . . . E 4 13.142 -52.675 -22.389 1 41.23 ? O06 6LM 800 A 1 HETATM 10 C C07 6LM . . . E 4 15.274 -52.627 -24.53 1 26.46 ? C07 6LM 800 A 1 HETATM 11 C C08 6LM . . . E 4 16.008 -51.746 -25.306 1 32.89 ? C08 6LM 800 A 1 HETATM 12 C C09 6LM . . . E 4 15.396 -50.939 -26.443 1 47.14 ? C09 6LM 800 A 1 HETATM 13 C C11 6LM . . . E 4 16.773 -51.812 -28.207 1 27.17 ? C11 6LM 800 A 1 HETATM 14 C C12 6LM . . . E 4 17.77 -50.729 -27.928 1 31.97 ? C12 6LM 800 A 1 HETATM 15 O O13 6LM . . . E 4 18.893 -50.804 -28.401 1 38.88 ? O13 6LM 800 A 1 HETATM 16 C C14 6LM . . . E 4 17.407 -49.557 -27.072 1 37.79 ? C14 6LM 800 A 1 HETATM 17 O O16 6LM . . . E 4 15.239 -49.111 -27.606 1 43.83 ? O16 6LM 800 A 1 HETATM 18 C C18 6LM . . . E 4 15.889 -48.72 -25.344 1 43.07 ? C18 6LM 800 A 1 HETATM 19 C C19 6LM . . . E 4 14.478 -52.731 -27.888 1 27.44 ? C19 6LM 800 A 1 HETATM 20 O O20 6LM . . . E 4 14.026 -50.718 -26.178 1 50.05 ? O20 6LM 800 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 459 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #