data_5YJY # _model_server_result.job_id QpuugLTrVZPgkKgupcs_7A _model_server_result.datetime_utc '2024-11-18 04:31:26' _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 5yjy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":606}' # _entry.id 5YJY # _exptl.entry_id 5YJY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 329.476 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-dodecyl-1-oxidanidyl-quinolin-1-ium-4-ol _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 5YJY _cell.length_a 69.854 _cell.length_b 115.795 _cell.length_c 166.499 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YJY _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 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,H,I,J,K,L,M,N,O,P _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 H N N ? 5 O N 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 O LEU 61 A LEU 89 1_555 F MG MG . A MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? metalc ? metalc2 A O ALA 147 A ALA 175 1_555 E MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc3 A O ILE 353 A ILE 381 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.931 ? metalc ? metalc4 C O2P FAD . A FAD 601 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? metalc ? metalc5 C O1P FAD . A FAD 601 1_555 E MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc6 C O2A FAD . A FAD 601 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.487 ? metalc ? metalc7 C O3P FAD . A FAD 601 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.596 ? metalc ? metalc8 B O ALA 148 B ALA 175 1_555 L MG MG . B MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? metalc ? metalc9 J O2P FAD . B FAD 601 1_555 K MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc10 J O3P FAD . B FAD 601 1_555 K MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.992 ? metalc ? metalc11 J O5B FAD . B FAD 601 1_555 L MG MG . B MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.83 ? metalc ? metalc12 J O1P FAD . B FAD 601 1_555 L MG MG . B MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc13 J O1A FAD . B FAD 601 1_555 M MG MG . B MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.42 ? metalc ? metalc14 J O2A FAD . B FAD 601 1_555 N MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? metalc ? metalc15 J O3P FAD . B FAD 601 1_555 N MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.75 ? # _chem_comp.formula 'C21 H31 N O2' _chem_comp.formula_weight 329.476 _chem_comp.id 8WF _chem_comp.mon_nstd_flag . _chem_comp.name 2-dodecyl-1-oxidanidyl-quinolin-1-ium-4-ol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '2-dodecyl -4-HYDROXY QUINOLINE N-OXIDE' # 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 O1 C1 8WF sing 1 n n C17 C16 8WF sing 2 n n C9 C8 8WF doub 3 n y C9 C10 8WF sing 4 n y C16 C15 8WF sing 5 n n C1 C10 8WF doub 6 n y C1 C2 8WF sing 7 n y C8 C7 8WF sing 8 n y C10 C5 8WF sing 9 n y C15 C14 8WF sing 10 n n C2 C3 8WF doub 11 n y C14 C12 8WF sing 12 n n C7 C6 8WF doub 13 n y C12 C13 8WF sing 14 n n C5 C6 8WF sing 15 n y C5 N1 8WF doub 16 n y C3 N1 8WF sing 17 n y C3 C11 8WF sing 18 n n N1 O4 8WF sing 19 n n C13 C11 8WF sing 20 n n O1 H1 8WF sing 21 n n C2 H2 8WF sing 22 n n C6 H4 8WF sing 23 n n C7 H5 8WF sing 24 n n C8 H6 8WF sing 25 n n C9 H7 8WF sing 26 n n C11 H8 8WF sing 27 n n C11 H9 8WF sing 28 n n C12 H10 8WF sing 29 n n C12 H11 8WF sing 30 n n C13 H12 8WF sing 31 n n C13 H13 8WF sing 32 n n C14 H14 8WF sing 33 n n C14 H15 8WF sing 34 n n C15 H16 8WF sing 35 n n C15 H17 8WF sing 36 n n C16 H18 8WF sing 37 n n C16 H19 8WF sing 38 n n C17 H20 8WF sing 39 n n C17 H21 8WF sing 40 n n C17 C4 8WF sing 41 n n C4 C18 8WF sing 42 n n C18 C19 8WF sing 43 n n C19 C20 8WF sing 44 n n C20 C21 8WF sing 45 n n C4 H22 8WF sing 46 n n C4 H23 8WF sing 47 n n C18 H24 8WF sing 48 n n C18 H25 8WF sing 49 n n C19 H26 8WF sing 50 n n C19 H27 8WF sing 51 n n C20 H28 8WF sing 52 n n C20 H29 8WF sing 53 n n C21 H30 8WF sing 54 n n C21 H31 8WF sing 55 n n C21 H32 8WF sing 56 n n # _atom_sites.entry_id 5YJY _atom_sites.fract_transf_matrix[1][1] 0.014316 _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] 0.008636 _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] 0.006006 _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 FAD A 1 601 601 FAD FAD . D 4 MG A 1 602 602 MG MG . E 4 MG A 1 603 603 MG MG . F 4 MG A 1 604 604 MG MG . G 4 MG A 1 605 605 MG MG . H 5 8WF A 1 606 701 8WF DRG . I 6 MES A 1 607 802 MES MES . J 3 FAD B 1 601 601 FAD FAD . K 4 MG B 1 602 602 MG MG . L 4 MG B 1 603 603 MG MG . M 4 MG B 1 604 604 MG MG . N 4 MG B 1 605 605 MG MG . O 5 8WF B 1 606 701 8WF DRG . P 6 MES B 1 607 801 MES MES . # 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 8WF . . . H 5 4.735 14.008 62.966 1 95.77 ? C1 8WF 606 A 1 HETATM 2 O O1 8WF . . . H 5 5.095 14.375 61.711 1 109.38 ? O1 8WF 606 A 1 HETATM 3 C C2 8WF . . . H 5 4.339 15 63.861 1 97.17 ? C2 8WF 606 A 1 HETATM 4 C C3 8WF . . . H 5 3.942 14.702 65.174 1 98.32 ? C3 8WF 606 A 1 HETATM 5 N N1 8WF . . . H 5 3.958 13.415 65.62 1 96.81 ? N1 8WF 606 A 1 HETATM 6 O O4 8WF . . . H 5 3.597 13.233 66.792 1 94.15 ? O4 8WF 606 A 1 HETATM 7 C C5 8WF . . . H 5 4.352 12.299 64.786 1 93.1 ? C5 8WF 606 A 1 HETATM 8 C C6 8WF . . . H 5 4.38 10.951 65.198 1 87.93 ? C6 8WF 606 A 1 HETATM 9 C C7 8WF . . . H 5 4.779 9.925 64.325 1 84.81 ? C7 8WF 606 A 1 HETATM 10 C C8 8WF . . . H 5 5.156 10.196 63.007 1 84.15 ? C8 8WF 606 A 1 HETATM 11 C C9 8WF . . . H 5 5.159 11.514 62.54 1 87.88 ? C9 8WF 606 A 1 HETATM 12 C C10 8WF . . . H 5 4.769 12.573 63.386 1 93.46 ? C10 8WF 606 A 1 HETATM 13 C C11 8WF . . . H 5 3.516 15.863 66.091 1 93.3 ? C11 8WF 606 A 1 HETATM 14 C C12 8WF . . . H 5 1.765 16.839 64.456 1 87.7 ? C12 8WF 606 A 1 HETATM 15 C C13 8WF . . . H 5 2.059 16.335 65.883 1 89.41 ? C13 8WF 606 A 1 HETATM 16 C C14 8WF . . . H 5 0.292 17.162 64.168 1 83.37 ? C14 8WF 606 A 1 HETATM 17 C C15 8WF . . . H 5 -0.542 15.905 63.854 1 77.01 ? C15 8WF 606 A 1 HETATM 18 C C16 8WF . . . H 5 -1.72 16.06 62.888 1 70.49 ? C16 8WF 606 A 1 HETATM 19 C C17 8WF . . . H 5 -1.626 17.223 61.927 1 68.61 ? C17 8WF 606 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 19 #