data_6ZFX # _model_server_result.job_id zSbn2lQ-enGX3uM0c083qA _model_server_result.datetime_utc '2025-02-28 15:08:17' _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 6zfx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":802}' # _entry.id 6ZFX # _exptl.entry_id 6ZFX _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 168.233 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (~{E})-4-methylnon-4-enedial _entity.pdbx_number_of_molecules 16 _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 6ZFX _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ZFX _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _pdbx_struct_assembly.details author_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,Q,R,S,T,U,V,W,X _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 ? _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 ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O N N ? 2 P N N ? 2 Q N N ? 2 R N N ? 2 S N N ? 2 T N N ? 2 U N N ? 2 V N N ? 2 W N N ? 2 X 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 covale ? covale1 A NZ LYS 393 A LYS 391 1_555 I C1 S1N . A S1N 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.281 ? covale ? covale2 A NZ LYS 430 A LYS 428 1_555 J C1 S1N . A S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.275 ? covale ? covale3 A NZ LYS 460 A LYS 458 1_555 J C5 S1N . A S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.271 ? covale ? covale4 B NZ LYS 393 B LYS 391 1_555 K C1 S1N . B S1N 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.282 ? covale ? covale5 B NZ LYS 430 B LYS 428 1_555 L C1 S1N . B S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.276 ? covale ? covale6 B NZ LYS 460 B LYS 458 1_555 L C5 S1N . B S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.27 ? covale ? covale7 C NZ LYS 393 C LYS 391 1_555 M C1 S1N . C S1N 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.281 ? covale ? covale8 C NZ LYS 430 C LYS 428 1_555 N C1 S1N . C S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.276 ? covale ? covale9 C NZ LYS 460 C LYS 458 1_555 N C5 S1N . C S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.27 ? covale ? covale10 D NZ LYS 393 D LYS 391 1_555 O C1 S1N . D S1N 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.282 ? covale ? covale11 D NZ LYS 430 D LYS 428 1_555 P C1 S1N . D S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.276 ? covale ? covale12 D NZ LYS 460 D LYS 458 1_555 P C5 S1N . D S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.271 ? covale ? covale13 E NZ LYS 393 E LYS 391 1_555 Q C1 S1N . E S1N 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.281 ? covale ? covale14 E NZ LYS 430 E LYS 428 1_555 R C1 S1N . E S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.275 ? covale ? covale15 E NZ LYS 460 E LYS 458 1_555 R C5 S1N . E S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.271 ? covale ? covale16 F NZ LYS 393 F LYS 391 1_555 S C1 S1N . F S1N 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.281 ? covale ? covale17 F NZ LYS 430 F LYS 428 1_555 T C1 S1N . F S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.276 ? covale ? covale18 F NZ LYS 460 F LYS 458 1_555 T C5 S1N . F S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.271 ? covale ? covale19 G NZ LYS 393 G LYS 391 1_555 U C1 S1N . G S1N 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.282 ? covale ? covale20 G NZ LYS 430 G LYS 428 1_555 V C1 S1N . G S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.276 ? covale ? covale21 G NZ LYS 460 G LYS 458 1_555 V C5 S1N . G S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.271 ? covale ? covale22 H NZ LYS 393 H LYS 391 1_555 W C1 S1N . H S1N 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.281 ? covale ? covale23 H NZ LYS 430 H LYS 428 1_555 X C1 S1N . H S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.277 ? covale ? covale24 H NZ LYS 460 H LYS 458 1_555 X C5 S1N . H S1N 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.27 ? # _chem_comp.formula 'C10 H16 O2' _chem_comp.formula_weight 168.233 _chem_comp.id S1N _chem_comp.mon_nstd_flag . _chem_comp.name (~{E})-4-methylnon-4-enedial _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 O13 C12 S1N doub 275 n n C12 C11 S1N sing 276 n n C11 C10 S1N sing 277 n n C10 C9 S1N sing 278 n n C9 C8 S1N sing 279 n n C8 C2 S1N doub 280 e n C2 C1 S1N sing 281 n n C2 C3 S1N sing 282 n n C3 C4 S1N sing 283 n n C4 C5 S1N sing 284 n n C5 O6 S1N doub 285 n n C12 H1 S1N sing 286 n n C1 H2 S1N sing 287 n n C1 H3 S1N sing 288 n n C1 H4 S1N sing 289 n n C3 H5 S1N sing 290 n n C3 H6 S1N sing 291 n n C4 H7 S1N sing 292 n n C4 H8 S1N sing 293 n n C5 H9 S1N sing 294 n n C8 H10 S1N sing 295 n n C9 H11 S1N sing 296 n n C9 H12 S1N sing 297 n n C10 H13 S1N sing 298 n n C10 H14 S1N sing 299 n n C11 H15 S1N sing 300 n n C11 H16 S1N sing 301 n n # _atom_sites.entry_id 6ZFX _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 I 2 S1N A 1 801 801 S1N GRA . J 2 S1N A 1 802 901 S1N GRA . K 2 S1N B 1 801 801 S1N GRA . L 2 S1N B 1 802 901 S1N GRA . M 2 S1N C 1 801 801 S1N GRA . N 2 S1N C 1 802 901 S1N GRA . O 2 S1N D 1 801 801 S1N GRA . P 2 S1N D 1 802 901 S1N GRA . Q 2 S1N E 1 801 801 S1N GRA . R 2 S1N E 1 802 901 S1N GRA . S 2 S1N F 1 801 801 S1N GRA . T 2 S1N F 1 802 901 S1N GRA . U 2 S1N G 1 801 801 S1N GRA . V 2 S1N G 1 802 901 S1N GRA . W 2 S1N H 1 801 801 S1N GRA . X 2 S1N H 1 802 901 S1N GRA . # 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 C12 S1N . . . T 2 111.318 137.294 167.868 1 394.12 ? C12 S1N 802 F 1 HETATM 2 C C1 S1N . . . T 2 116.339 141.173 167.761 1 223.11 ? C1 S1N 802 F 1 HETATM 3 C C2 S1N . . . T 2 116.783 139.77 167.916 1 202.58 ? C2 S1N 802 F 1 HETATM 4 C C3 S1N . . . T 2 118.154 139.36 167.407 1 207.37 ? C3 S1N 802 F 1 HETATM 5 C C4 S1N . . . T 2 119.296 139.783 168.349 1 247.39 ? C4 S1N 802 F 1 HETATM 6 C C5 S1N . . . T 2 119.546 141.284 168.449 1 248.59 ? C5 S1N 802 F 1 HETATM 7 C C8 S1N . . . T 2 115.955 138.844 168.451 1 208.85 ? C8 S1N 802 F 1 HETATM 8 C C9 S1N . . . T 2 114.556 139.133 168.978 1 250.42 ? C9 S1N 802 F 1 HETATM 9 C C10 S1N . . . T 2 113.492 138.529 168.052 1 315.81 ? C10 S1N 802 F 1 HETATM 10 C C11 S1N . . . T 2 112.26 138.027 168.806 1 369.87 ? C11 S1N 802 F 1 HETATM 11 O O13 S1N . . . T 2 110.725 136.288 168.227 1 404.96 ? O13 S1N 802 F 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 64 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 11 #