data_8CQD # _model_server_result.job_id sVxP-DyMeFI1rJgS9Z9zJA _model_server_result.datetime_utc '2024-11-15 03:17:40' _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 8cqd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":301}' # _entry.id 8CQD # _exptl.entry_id 8CQD _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 284.436 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description RETINAL _entity.pdbx_number_of_molecules 6 _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 8CQD _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CQD _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 hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _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 G N N ? 2 H N N ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L 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 232 A LYS 232 1_555 G C15 RET . A RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 B NZ LYS 232 B LYS 232 1_555 H C15 RET . B RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.355 ? covale ? covale3 C NZ LYS 232 C LYS 232 1_555 I C15 RET . C RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.306 ? covale ? covale4 D NZ LYS 232 E LYS 232 1_555 J C15 RET . E RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale5 E NZ LYS 232 F LYS 232 1_555 K C15 RET . F RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.309 ? covale ? covale6 F NZ LYS 232 D LYS 232 1_555 L C15 RET . D RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? # _chem_comp.formula 'C20 H28 O' _chem_comp.formula_weight 284.436 _chem_comp.id RET _chem_comp.mon_nstd_flag . _chem_comp.name RETINAL _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 C1 C2 RET sing 275 n n C1 C6 RET sing 276 n n C1 C16 RET sing 277 n n C1 C17 RET sing 278 n n C2 C3 RET sing 279 n n C2 H21 RET sing 280 n n C2 H22 RET sing 281 n n C3 C4 RET sing 282 n n C3 H31 RET sing 283 n n C3 H32 RET sing 284 n n C4 C5 RET sing 285 n n C4 H41 RET sing 286 n n C4 H42 RET sing 287 n n C5 C6 RET doub 288 n n C5 C18 RET sing 289 n n C6 C7 RET sing 290 n n C7 C8 RET doub 291 e n C7 H7 RET sing 292 n n C8 C9 RET sing 293 n n C8 H8 RET sing 294 n n C9 C10 RET doub 295 e n C9 C19 RET sing 296 n n C10 C11 RET sing 297 n n C10 H10 RET sing 298 n n C11 C12 RET doub 299 e n C11 H11 RET sing 300 n n C12 C13 RET sing 301 n n C12 H12 RET sing 302 n n C13 C14 RET doub 303 e n C13 C20 RET sing 304 n n C14 C15 RET sing 305 n n C14 H14 RET sing 306 n n C15 O1 RET doub 307 n n C15 H15 RET sing 308 n n C16 H161 RET sing 309 n n C16 H162 RET sing 310 n n C16 H163 RET sing 311 n n C17 H171 RET sing 312 n n C17 H172 RET sing 313 n n C17 H173 RET sing 314 n n C18 H181 RET sing 315 n n C18 H182 RET sing 316 n n C18 H183 RET sing 317 n n C19 H191 RET sing 318 n n C19 H192 RET sing 319 n n C19 H193 RET sing 320 n n C20 H201 RET sing 321 n n C20 H202 RET sing 322 n n C20 H203 RET sing 323 n n # _atom_sites.entry_id 8CQD _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 G 2 RET A 1 301 301 RET RET . H 2 RET B 1 301 301 RET RET . I 2 RET C 1 301 301 RET RET . J 2 RET E 1 301 301 RET RET . K 2 RET F 1 301 301 RET RET . L 2 RET D 1 301 301 RET RET . # 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 RET . . . I 2 111.423 121.873 95.441 1 75.53 ? C1 RET 301 C 1 HETATM 2 C C2 RET . . . I 2 112.67 122.478 96.129 1 75.53 ? C2 RET 301 C 1 HETATM 3 C C3 RET . . . I 2 113.046 123.859 95.721 1 75.53 ? C3 RET 301 C 1 HETATM 4 C C4 RET . . . I 2 113.173 123.944 94.234 1 75.53 ? C4 RET 301 C 1 HETATM 5 C C5 RET . . . I 2 112.091 123.264 93.48 1 75.53 ? C5 RET 301 C 1 HETATM 6 C C6 RET . . . I 2 111.265 122.316 93.978 1 75.53 ? C6 RET 301 C 1 HETATM 7 C C7 RET . . . I 2 110.239 121.769 93.055 1 75.53 ? C7 RET 301 C 1 HETATM 8 C C8 RET . . . I 2 109.281 120.843 93.218 1 75.53 ? C8 RET 301 C 1 HETATM 9 C C9 RET . . . I 2 108.331 120.4 92.187 1 75.53 ? C9 RET 301 C 1 HETATM 10 C C10 RET . . . I 2 107.431 119.454 92.52 1 75.53 ? C10 RET 301 C 1 HETATM 11 C C11 RET . . . I 2 106.401 118.866 91.677 1 75.53 ? C11 RET 301 C 1 HETATM 12 C C12 RET . . . I 2 105.583 117.929 92.176 1 75.53 ? C12 RET 301 C 1 HETATM 13 C C13 RET . . . I 2 104.506 117.241 91.472 1 75.53 ? C13 RET 301 C 1 HETATM 14 C C14 RET . . . I 2 103.811 116.338 92.156 1 75.53 ? C14 RET 301 C 1 HETATM 15 C C15 RET . . . I 2 102.683 115.512 91.675 1 75.53 ? C15 RET 301 C 1 HETATM 16 C C16 RET . . . I 2 110.325 122.374 96.381 1 75.53 ? C16 RET 301 C 1 HETATM 17 C C17 RET . . . I 2 111.491 120.354 95.624 1 75.53 ? C17 RET 301 C 1 HETATM 18 C C18 RET . . . I 2 112.054 123.8 92.085 1 75.53 ? C18 RET 301 C 1 HETATM 19 C C19 RET . . . I 2 108.389 121.001 90.831 1 75.53 ? C19 RET 301 C 1 HETATM 20 C C20 RET . . . I 2 104.251 117.583 90.056 1 75.53 ? C20 RET 301 C 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 252 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #