data_8YN8 # _model_server_result.job_id 1M-4ju_ZgYNJxXSHyQkr3w _model_server_result.datetime_utc '2024-12-22 07:02:31' _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 8yn8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":701}' # _entry.id 8YN8 # _exptl.entry_id 8YN8 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 216.279 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-(3-phenylmethoxypropyl)-1H-imidazole _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 8YN8 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8YN8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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 _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 6 _struct_asym.id F _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 disulf ? disulf1 D SG CYS 22 E CYS 22 1_555 D SG CYS 96 E CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 D SG CYS 159 E CYS 159 1_555 D SG CYS 229 E CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 E SG CYS 160 R CYS 107 1_555 E SG CYS 241 R CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 E SG CYS 437 R CYS 384 1_555 E SG CYS 441 R CYS 388 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? # _chem_comp.formula 'C13 H16 N2 O' _chem_comp.formula_weight 216.279 _chem_comp.id A1LY3 _chem_comp.mon_nstd_flag . _chem_comp.name 5-(3-phenylmethoxypropyl)-1H-imidazole _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 C13 C12 A1LY3 doub 1 n y C13 C14 A1LY3 sing 2 n y C12 C11 A1LY3 sing 3 n y C14 C15 A1LY3 doub 4 n y O09 C01 A1LY3 sing 5 n n O09 C10 A1LY3 sing 6 n n C11 C10 A1LY3 sing 7 n n C11 C16 A1LY3 doub 8 n y C01 C02 A1LY3 sing 9 n n C15 C16 A1LY3 sing 10 n y C02 C03 A1LY3 sing 11 n n N06 C07 A1LY3 doub 12 n y N06 C05 A1LY3 sing 13 n y C07 N08 A1LY3 sing 14 n y C05 C04 A1LY3 doub 15 n y N08 C04 A1LY3 sing 16 n y C04 C03 A1LY3 sing 17 n n C10 H1 A1LY3 sing 18 n n C10 H2 A1LY3 sing 19 n n C13 H3 A1LY3 sing 20 n n C15 H4 A1LY3 sing 21 n n C01 H5 A1LY3 sing 22 n n C01 H6 A1LY3 sing 23 n n C02 H7 A1LY3 sing 24 n n C02 H8 A1LY3 sing 25 n n C03 H9 A1LY3 sing 26 n n C03 H10 A1LY3 sing 27 n n C05 H11 A1LY3 sing 28 n n C07 H12 A1LY3 sing 29 n n C12 H13 A1LY3 sing 30 n n C14 H14 A1LY3 sing 31 n n C16 H15 A1LY3 sing 32 n n N08 H17 A1LY3 sing 33 n n # _atom_sites.entry_id 8YN8 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 F 6 A1LY3 R 1 701 701 A1LY3 LIG . G 7 CLR R 1 702 801 CLR CLR . H 7 CLR R 1 703 802 CLR CLR . I 7 CLR R 1 704 803 CLR CLR . J 7 CLR R 1 705 804 CLR CLR . K 7 CLR R 1 706 805 CLR CLR . # 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 A1LY3 . . . F 6 88.22 120.238 121.372 1 84.59 ? C10 A1LY3 701 R 1 HETATM 2 C C13 A1LY3 . . . F 6 86.387 122.736 119.177 1 87.09 ? C13 A1LY3 701 R 1 HETATM 3 C C15 A1LY3 . . . F 6 87.124 123.87 121.16 1 86.36 ? C15 A1LY3 701 R 1 HETATM 4 C C01 A1LY3 . . . F 6 87.779 117.961 121.069 1 84.58 ? C01 A1LY3 701 R 1 HETATM 5 C C02 A1LY3 . . . F 6 86.415 117.893 121.749 1 82.69 ? C02 A1LY3 701 R 1 HETATM 6 C C03 A1LY3 . . . F 6 86.236 116.635 122.593 1 79.92 ? C03 A1LY3 701 R 1 HETATM 7 C C04 A1LY3 . . . F 6 84.896 115.962 122.306 1 82.56 ? C04 A1LY3 701 R 1 HETATM 8 C C05 A1LY3 . . . F 6 83.689 116.595 122.071 1 82.48 ? C05 A1LY3 701 R 1 HETATM 9 C C07 A1LY3 . . . F 6 83.381 114.48 121.965 1 83.63 ? C07 A1LY3 701 R 1 HETATM 10 C C11 A1LY3 . . . F 6 87.601 121.538 120.863 1 83.7 ? C11 A1LY3 701 R 1 HETATM 11 C C12 A1LY3 . . . F 6 86.95 121.559 119.641 1 83.46 ? C12 A1LY3 701 R 1 HETATM 12 C C14 A1LY3 . . . F 6 86.474 123.891 119.937 1 87.58 ? C14 A1LY3 701 R 1 HETATM 13 C C16 A1LY3 . . . F 6 87.688 122.692 121.624 1 85.73 ? C16 A1LY3 701 R 1 HETATM 14 N N06 A1LY3 . . . F 6 82.787 115.654 121.865 1 80.57 ? N06 A1LY3 701 R 1 HETATM 15 N N08 A1LY3 . . . F 6 84.661 114.665 122.231 1 85.49 ? N08 A1LY3 701 R 1 HETATM 16 O O09 A1LY3 . . . F 6 87.888 119.221 120.473 1 85.29 ? O09 A1LY3 701 R 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 33 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 16 #