data_8CL8 # _model_server_result.job_id 4Y2RW4nqLb7NPTvlmLwW5w _model_server_result.datetime_utc '2025-07-27 21:12:46' _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 8cl8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"AA","auth_seq_id":326}' # _entry.id 8CL8 # _exptl.entry_id 8CL8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description RETINAL _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 8CL8 _cell.length_a 41.46 _cell.length_b 84.89 _cell.length_c 234.95 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CL8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,Q,R,S,T,U,V,W,X,Y,Z,AA,BA _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 3 _struct_asym.id AA _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 248 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 255 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id AA _struct_conn.ptnr2_label_atom_id C15 _struct_conn.ptnr2_label_comp_id RET _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id RET _struct_conn.ptnr2_auth_seq_id 326 _struct_conn.ptnr2_symmetry 1_555 _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 1.43 _struct_conn.pdbx_value_order ? # _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 325 n n C1 C6 RET sing 326 n n C1 C16 RET sing 327 n n C1 C17 RET sing 328 n n C2 C3 RET sing 329 n n C2 H21 RET sing 330 n n C2 H22 RET sing 331 n n C3 C4 RET sing 332 n n C3 H31 RET sing 333 n n C3 H32 RET sing 334 n n C4 C5 RET sing 335 n n C4 H41 RET sing 336 n n C4 H42 RET sing 337 n n C5 C6 RET doub 338 n n C5 C18 RET sing 339 n n C6 C7 RET sing 340 n n C7 C8 RET doub 341 e n C7 H7 RET sing 342 n n C8 C9 RET sing 343 n n C8 H8 RET sing 344 n n C9 C10 RET doub 345 e n C9 C19 RET sing 346 n n C10 C11 RET sing 347 n n C10 H10 RET sing 348 n n C11 C12 RET doub 349 e n C11 H11 RET sing 350 n n C12 C13 RET sing 351 n n C12 H12 RET sing 352 n n C13 C14 RET doub 353 e n C13 C20 RET sing 354 n n C14 C15 RET sing 355 n n C14 H14 RET sing 356 n n C15 O1 RET doub 357 n n C15 H15 RET sing 358 n n C16 H161 RET sing 359 n n C16 H162 RET sing 360 n n C16 H163 RET sing 361 n n C17 H171 RET sing 362 n n C17 H172 RET sing 363 n n C17 H173 RET sing 364 n n C18 H181 RET sing 365 n n C18 H182 RET sing 366 n n C18 H183 RET sing 367 n n C19 H191 RET sing 368 n n C19 H192 RET sing 369 n n C19 H193 RET sing 370 n n C20 H201 RET sing 371 n n C20 H202 RET sing 372 n n C20 H203 RET sing 373 n n # _atom_sites.entry_id 8CL8 _atom_sites.fract_transf_matrix[1][1] 0.02412 _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] 0.01178 _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] 0.004256 _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 B 2 LFA A 1 301 402 LFA LFA . C 2 LFA A 1 302 403 LFA LFA . D 2 LFA A 1 303 404 LFA LFA . E 2 LFA A 1 304 405 LFA LFA . F 2 LFA A 1 305 407 LFA LFA . G 2 LFA A 1 306 408 LFA LFA . H 2 LFA A 1 307 410 LFA LFA . I 2 LFA A 1 308 411 LFA LFA . J 2 LFA A 1 309 412 LFA LFA . K 2 LFA A 1 310 413 LFA LFA . L 2 LFA A 1 311 414 LFA LFA . M 2 LFA A 1 312 415 LFA LFA . N 2 LFA A 1 313 416 LFA LFA . O 2 LFA A 1 314 417 LFA LFA . P 2 LFA A 1 315 418 LFA LFA . Q 2 LFA A 1 316 419 LFA LFA . R 2 LFA A 1 317 420 LFA LFA . S 2 LFA A 1 318 421 LFA LFA . T 2 LFA A 1 319 422 LFA LFA . U 2 LFA A 1 320 423 LFA LFA . V 2 LFA A 1 321 424 LFA LFA . W 2 LFA A 1 322 425 LFA LFA . X 2 LFA A 1 323 426 LFA LFA . Y 2 LFA A 1 324 427 LFA LFA . Z 2 LFA A 1 325 428 LFA LFA . AA 3 RET A 1 326 301 RET RET . BA 4 HOH A 1 401 47 HOH HOH . BA 4 HOH A 2 402 13 HOH HOH . BA 4 HOH A 3 403 49 HOH HOH . BA 4 HOH A 4 404 58 HOH HOH . BA 4 HOH A 5 405 41 HOH HOH . BA 4 HOH A 6 406 31 HOH HOH . BA 4 HOH A 7 407 10 HOH HOH . BA 4 HOH A 8 408 17 HOH HOH . BA 4 HOH A 9 409 28 HOH HOH . BA 4 HOH A 10 410 21 HOH HOH . BA 4 HOH A 11 411 1 HOH HOH . BA 4 HOH A 12 412 9 HOH HOH . BA 4 HOH A 13 413 24 HOH HOH . BA 4 HOH A 14 414 45 HOH HOH . BA 4 HOH A 15 415 3 HOH HOH . BA 4 HOH A 16 416 52 HOH HOH . BA 4 HOH A 17 417 4 HOH HOH . BA 4 HOH A 18 418 5 HOH HOH . BA 4 HOH A 19 419 43 HOH HOH . BA 4 HOH A 20 420 59 HOH HOH . BA 4 HOH A 21 421 7 HOH HOH . BA 4 HOH A 22 422 12 HOH HOH . BA 4 HOH A 23 423 48 HOH HOH . BA 4 HOH A 24 424 40 HOH HOH . BA 4 HOH A 25 425 22 HOH HOH . BA 4 HOH A 26 426 42 HOH HOH . BA 4 HOH A 27 427 51 HOH HOH . BA 4 HOH A 28 428 65 HOH HOH . BA 4 HOH A 29 429 23 HOH HOH . BA 4 HOH A 30 430 39 HOH HOH . BA 4 HOH A 31 431 6 HOH HOH . BA 4 HOH A 32 432 27 HOH HOH . BA 4 HOH A 33 433 2 HOH HOH . BA 4 HOH A 34 434 8 HOH HOH . BA 4 HOH A 35 435 11 HOH HOH . BA 4 HOH A 36 436 64 HOH HOH . BA 4 HOH A 37 437 60 HOH HOH . BA 4 HOH A 38 438 35 HOH HOH . BA 4 HOH A 39 439 33 HOH HOH . BA 4 HOH A 40 440 46 HOH HOH . BA 4 HOH A 41 441 38 HOH HOH . BA 4 HOH A 42 442 18 HOH HOH . BA 4 HOH A 43 443 29 HOH HOH . BA 4 HOH A 44 444 20 HOH HOH . BA 4 HOH A 45 445 19 HOH HOH . BA 4 HOH A 46 446 32 HOH HOH . BA 4 HOH A 47 447 61 HOH HOH . BA 4 HOH A 48 448 26 HOH HOH . BA 4 HOH A 49 449 37 HOH HOH . BA 4 HOH A 50 450 34 HOH HOH . BA 4 HOH A 51 451 53 HOH HOH . BA 4 HOH A 52 452 30 HOH HOH . BA 4 HOH A 53 453 62 HOH HOH . BA 4 HOH A 54 454 66 HOH HOH . BA 4 HOH A 55 455 63 HOH HOH . BA 4 HOH A 56 456 16 HOH HOH . BA 4 HOH A 57 457 36 HOH HOH . BA 4 HOH A 58 458 15 HOH HOH . BA 4 HOH A 59 459 57 HOH HOH . BA 4 HOH A 60 460 14 HOH HOH . BA 4 HOH A 61 461 54 HOH HOH . BA 4 HOH A 62 462 56 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 C1 RET . . . AA 3 64.326 101.894 262.337 1 28.99 ? C1 RET 326 A 1 HETATM 2 C C2 RET . . . AA 3 65.069 100.863 261.48 1 37.98 ? C2 RET 326 A 1 HETATM 3 C C3 RET . . . AA 3 64.331 99.539 261.378 1 30.65 ? C3 RET 326 A 1 HETATM 4 C C4 RET . . . AA 3 64.122 98.936 262.747 1 31.4 ? C4 RET 326 A 1 HETATM 5 C C5 RET . . . AA 3 63.729 99.928 263.813 1 38.23 ? C5 RET 326 A 1 HETATM 6 C C6 RET . . . AA 3 63.832 101.257 263.643 1 34.06 ? C6 RET 326 A 1 HETATM 7 C C7 RET . . . AA 3 63.486 102.177 264.767 1 27.44 ? C7 RET 326 A 1 HETATM 8 C C8 RET . . . AA 3 63.197 103.486 264.776 1 36.35 ? C8 RET 326 A 1 HETATM 9 C C9 RET . . . AA 3 62.879 104.288 265.954 1 36.61 ? C9 RET 326 A 1 HETATM 10 C C10 RET . . . AA 3 62.833 105.639 265.847 1 31.73 ? C10 RET 326 A 1 HETATM 11 C C11 RET . . . AA 3 62.843 106.601 266.914 1 29.06 ? C11 RET 326 A 1 HETATM 12 C C12 RET . . . AA 3 62.77 107.937 266.751 1 29.7 ? C12 RET 326 A 1 HETATM 13 C C13 RET . . . AA 3 62.814 108.94 267.808 1 24.52 ? C13 RET 326 A 1 HETATM 14 C C14 RET . . . AA 3 62.601 110.247 267.515 1 21.41 ? C14 RET 326 A 1 HETATM 15 C C15 RET . . . AA 3 62.341 110.798 266.21 1 30.68 ? C15 RET 326 A 1 HETATM 16 C C16 RET . . . AA 3 65.312 103.03 262.621 1 27.3 ? C16 RET 326 A 1 HETATM 17 C C17 RET . . . AA 3 63.148 102.448 261.527 1 25.88 ? C17 RET 326 A 1 HETATM 18 C C18 RET . . . AA 3 63.231 99.271 265.068 1 32.02 ? C18 RET 326 A 1 HETATM 19 C C19 RET . . . AA 3 62.786 103.58 267.273 1 32.49 ? C19 RET 326 A 1 HETATM 20 C C20 RET . . . AA 3 63.065 108.463 269.206 1 20.82 ? C20 RET 326 A 1 HETATM 21 H H21 RET . . . AA 3 65.24 101.265 260.482 1 45.58 ? H21 RET 326 A 1 HETATM 22 H H22 RET . . . AA 3 66.067 100.696 261.883 1 45.58 ? H22 RET 326 A 1 HETATM 23 H H31 RET . . . AA 3 64.877 98.846 260.741 1 36.78 ? H31 RET 326 A 1 HETATM 24 H H32 RET . . . AA 3 63.373 99.674 260.877 1 36.78 ? H32 RET 326 A 1 HETATM 25 H H41 RET . . . AA 3 65.035 98.418 263.04 1 37.68 ? H41 RET 326 A 1 HETATM 26 H H42 RET . . . AA 3 63.367 98.155 262.67 1 37.68 ? H42 RET 326 A 1 HETATM 27 H H7 RET . . . AA 3 63.478 101.659 265.725 1 32.94 ? H7 RET 326 A 1 HETATM 28 H H8 RET . . . AA 3 63.193 104.02 263.827 1 43.63 ? H8 RET 326 A 1 HETATM 29 H H10 RET . . . AA 3 62.782 106.068 264.848 1 38.09 ? H10 RET 326 A 1 HETATM 30 H H11 RET . . . AA 3 62.916 106.18 267.916 1 34.88 ? H11 RET 326 A 1 HETATM 31 H H12 RET . . . AA 3 62.667 108.339 265.744 1 35.65 ? H12 RET 326 A 1 HETATM 32 H H14 RET . . . AA 3 62.62 110.986 268.315 1 25.7 ? H14 RET 326 A 1 HETATM 33 H H15 RET . . . AA 3 61.548 110.325 265.634 1 36.82 ? H15 RET 326 A 1 HETATM 34 H H161 RET . . . AA 3 65.89 102.847 263.525 1 32.77 ? H161 RET 326 A 1 HETATM 35 H H162 RET . . . AA 3 64.803 103.983 262.755 1 32.77 ? H162 RET 326 A 1 HETATM 36 H H163 RET . . . AA 3 66.024 103.16 261.807 1 32.77 ? H163 RET 326 A 1 HETATM 37 H H171 RET . . . AA 3 62.535 103.136 262.106 1 31.07 ? H171 RET 326 A 1 HETATM 38 H H172 RET . . . AA 3 62.483 101.661 261.175 1 31.07 ? H172 RET 326 A 1 HETATM 39 H H173 RET . . . AA 3 63.475 102.994 260.643 1 31.07 ? H173 RET 326 A 1 HETATM 40 H H181 RET . . . AA 3 63.941 99.377 265.887 1 38.44 ? H181 RET 326 A 1 HETATM 41 H H182 RET . . . AA 3 63.062 98.205 264.925 1 38.44 ? H182 RET 326 A 1 HETATM 42 H H183 RET . . . AA 3 62.289 99.703 265.402 1 38.44 ? H183 RET 326 A 1 HETATM 43 H H191 RET . . . AA 3 62.193 104.15 267.987 1 38.99 ? H191 RET 326 A 1 HETATM 44 H H192 RET . . . AA 3 63.772 103.429 267.711 1 38.99 ? H192 RET 326 A 1 HETATM 45 H H193 RET . . . AA 3 62.321 102.602 267.166 1 38.99 ? H193 RET 326 A 1 HETATM 46 H H201 RET . . . AA 3 62.135 108.177 269.696 1 24.99 ? H201 RET 326 A 1 HETATM 47 H H202 RET . . . AA 3 63.724 107.596 269.212 1 24.99 ? H202 RET 326 A 1 HETATM 48 H H203 RET . . . AA 3 63.533 109.241 269.808 1 24.99 ? H203 RET 326 A 1 # _model_server_stats.io_time_ms 211 _model_server_stats.parse_time_ms 378 _model_server_stats.create_model_time_ms 59 _model_server_stats.query_time_ms 997 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 48 #