data_9F9J # _model_server_result.job_id Ao3p4kP6yLGwZc1mNYZ8MQ _model_server_result.datetime_utc '2025-01-22 13:52:38' _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 9f9j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":317}' # _entry.id 9F9J # _exptl.entry_id 9F9J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 4 _entity.src_method man _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 120 _cell.entry_id 9F9J _cell.length_a 62.95 _cell.length_b 62.95 _cell.length_c 111.7 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9F9J _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 4 _struct_asym.id R _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 213 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 216 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id R _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 317 _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 1.34 _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 437 n n C1 C6 RET sing 438 n n C1 C16 RET sing 439 n n C1 C17 RET sing 440 n n C2 C3 RET sing 441 n n C2 H21 RET sing 442 n n C2 H22 RET sing 443 n n C3 C4 RET sing 444 n n C3 H31 RET sing 445 n n C3 H32 RET sing 446 n n C4 C5 RET sing 447 n n C4 H41 RET sing 448 n n C4 H42 RET sing 449 n n C5 C6 RET doub 450 n n C5 C18 RET sing 451 n n C6 C7 RET sing 452 n n C7 C8 RET doub 453 e n C7 H7 RET sing 454 n n C8 C9 RET sing 455 n n C8 H8 RET sing 456 n n C9 C10 RET doub 457 e n C9 C19 RET sing 458 n n C10 C11 RET sing 459 n n C10 H10 RET sing 460 n n C11 C12 RET doub 461 e n C11 H11 RET sing 462 n n C12 C13 RET sing 463 n n C12 H12 RET sing 464 n n C13 C14 RET doub 465 e n C13 C20 RET sing 466 n n C14 C15 RET sing 467 n n C14 H14 RET sing 468 n n C15 O1 RET doub 469 n n C15 H15 RET sing 470 n n C16 H161 RET sing 471 n n C16 H162 RET sing 472 n n C16 H163 RET sing 473 n n C17 H171 RET sing 474 n n C17 H172 RET sing 475 n n C17 H173 RET sing 476 n n C18 H181 RET sing 477 n n C18 H182 RET sing 478 n n C18 H183 RET sing 479 n n C19 H191 RET sing 480 n n C19 H192 RET sing 481 n n C19 H193 RET sing 482 n n C20 H201 RET sing 483 n n C20 H202 RET sing 484 n n C20 H203 RET sing 485 n n # _atom_sites.entry_id 9F9J _atom_sites.fract_transf_matrix[1][1] 0.015886 _atom_sites.fract_transf_matrix[1][2] 0.009172 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018343 _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] 0.008953 _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 LI1 A 1 301 303 LI1 LI1 . C 2 LI1 A 1 302 305 LI1 LI1 . D 2 LI1 A 1 303 306 LI1 LI1 . E 2 LI1 A 1 304 307 LI1 LI1 . F 2 LI1 A 1 305 308 LI1 LI1 . G 3 OLC A 1 306 309 OLC OLC . H 3 OLC A 1 307 310 OLC OLC . I 3 OLC A 1 308 312 OLC OLC . J 3 OLC A 1 309 313 OLC OLC . K 3 OLC A 1 310 314 OLC OLC . L 2 LI1 A 1 311 316 LI1 LI1 . M 2 LI1 A 1 312 317 LI1 LI1 . N 2 LI1 A 1 313 319 LI1 LI1 . O 2 LI1 A 1 314 320 LI1 LI1 . P 2 LI1 A 1 315 321 LI1 LI1 . Q 2 LI1 A 1 316 322 LI1 LI1 . R 4 RET A 1 317 216 RET LYR . S 5 HOH A 1 401 488 HOH HOH . S 5 HOH A 2 402 481 HOH HOH . S 5 HOH A 3 403 402 HOH HOH . S 5 HOH A 4 404 497 HOH HOH . S 5 HOH A 5 405 479 HOH HOH . S 5 HOH A 6 406 425 HOH HOH . S 5 HOH A 7 407 420 HOH HOH . S 5 HOH A 8 408 403 HOH HOH . S 5 HOH A 9 409 455 HOH HOH . S 5 HOH A 10 410 499 HOH HOH . S 5 HOH A 11 411 477 HOH HOH . S 5 HOH A 12 412 414 HOH HOH . S 5 HOH A 13 413 400 HOH HOH . S 5 HOH A 14 414 496 HOH HOH . S 5 HOH A 15 415 476 HOH HOH . S 5 HOH A 16 416 416 HOH HOH . S 5 HOH A 17 417 421 HOH HOH . S 5 HOH A 18 418 478 HOH HOH . S 5 HOH A 19 419 417 HOH HOH . S 5 HOH A 20 420 415 HOH HOH . S 5 HOH A 21 421 406 HOH HOH . S 5 HOH A 22 422 408 HOH HOH . S 5 HOH A 23 423 418 HOH HOH . S 5 HOH A 24 424 422 HOH HOH . S 5 HOH A 25 425 401 HOH HOH . S 5 HOH A 26 426 498 HOH HOH . S 5 HOH A 27 427 500 HOH HOH . S 5 HOH A 28 428 475 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 . . . R 4 15.02 46.451 29.829 1 43.86 ? C1 RET 317 A 1 HETATM 2 C C2 RET . . . R 4 14.621 47.374 28.664 1 39.03 ? C2 RET 317 A 1 HETATM 3 C C3 RET . . . R 4 15.398 48.684 28.623 1 58.66 ? C3 RET 317 A 1 HETATM 4 C C4 RET . . . R 4 15.196 49.467 29.908 1 58.25 ? C4 RET 317 A 1 HETATM 5 C C5 RET . . . R 4 15.186 48.603 31.139 1 47.83 ? C5 RET 317 A 1 HETATM 6 C C6 RET . . . R 4 15.36 47.272 31.078 1 42.29 ? C6 RET 317 A 1 HETATM 7 C C7 RET . . . R 4 16.033 46.56 32.172 1 32.71 ? C7 RET 317 A 1 HETATM 8 C C8 RET . . . R 4 15.973 45.28 32.552 1 45.06 ? C8 RET 317 A 1 HETATM 9 C C9 RET . . . R 4 16.619 44.688 33.714 1 39.68 ? C9 RET 317 A 1 HETATM 10 C C10 RET . . . R 4 16.764 43.342 33.789 1 40.82 ? C10 RET 317 A 1 HETATM 11 C C11 RET . . . R 4 17.5 42.608 34.775 1 45.84 ? C11 RET 317 A 1 HETATM 12 C C12 RET . . . R 4 17.739 41.287 34.759 1 48.57 ? C12 RET 317 A 1 HETATM 13 C C13 RET . . . R 4 18.681 40.571 35.607 1 52.29 ? C13 RET 317 A 1 HETATM 14 C C14 RET . . . R 4 18.948 39.269 35.341 1 60.75 ? C14 RET 317 A 1 HETATM 15 C C15 RET . . . R 4 18.049 38.147 35.112 1 41.15 ? C15 RET 317 A 1 HETATM 16 C C16 RET . . . R 4 16.225 45.602 29.404 1 44.35 ? C16 RET 317 A 1 HETATM 17 C C17 RET . . . R 4 13.828 45.526 30.105 1 40.62 ? C17 RET 317 A 1 HETATM 18 C C18 RET . . . R 4 15.071 49.388 32.416 1 45.47 ? C18 RET 317 A 1 HETATM 19 C C19 RET . . . R 4 17.254 45.617 34.711 1 41.55 ? C19 RET 317 A 1 HETATM 20 C C20 RET . . . R 4 19.562 41.389 36.51 1 48.84 ? C20 RET 317 A 1 HETATM 21 H H21 RET . . . R 4 14.753 46.913 27.811 1 46.88 ? H21 RET 317 A 1 HETATM 22 H H22 RET . . . R 4 13.667 47.584 28.715 1 46.88 ? H22 RET 317 A 1 HETATM 23 H H31 RET . . . R 4 15.108 49.223 27.86 1 70.45 ? H31 RET 317 A 1 HETATM 24 H H32 RET . . . R 4 16.351 48.506 28.493 1 70.45 ? H32 RET 317 A 1 HETATM 25 H H41 RET . . . R 4 14.349 49.956 29.864 1 69.95 ? H41 RET 317 A 1 HETATM 26 H H42 RET . . . R 4 15.906 50.134 30 1 69.95 ? H42 RET 317 A 1 HETATM 27 H H7 RET . . . R 4 16.84 47.042 32.448 1 39.31 ? H7 RET 317 A 1 HETATM 28 H H8 RET . . . R 4 15.176 44.796 32.253 1 54.13 ? H8 RET 317 A 1 HETATM 29 H H10 RET . . . R 4 16.324 42.8 33.102 1 49.04 ? H10 RET 317 A 1 HETATM 30 H H11 RET . . . R 4 17.524 43.015 35.665 1 55.05 ? H11 RET 317 A 1 HETATM 31 H H12 RET . . . R 4 17.235 40.746 34.117 1 58.33 ? H12 RET 317 A 1 HETATM 32 H H14 RET . . . R 4 19.884 38.989 35.282 1 72.95 ? H14 RET 317 A 1 HETATM 33 H H15 RET . . . R 4 17.086 38.323 35.083 1 49.43 ? H15 RET 317 A 1 HETATM 34 H H161 RET . . . R 4 16.129 45.264 28.49 1 53.28 ? H161 RET 317 A 1 HETATM 35 H H162 RET . . . R 4 17.06 46.112 29.433 1 53.28 ? H162 RET 317 A 1 HETATM 36 H H163 RET . . . R 4 16.346 44.823 29.984 1 53.28 ? H163 RET 317 A 1 HETATM 37 H H171 RET . . . R 4 14.129 44.61 30.273 1 48.79 ? H171 RET 317 A 1 HETATM 38 H H172 RET . . . R 4 13.216 45.509 29.342 1 48.79 ? H172 RET 317 A 1 HETATM 39 H H173 RET . . . R 4 13.326 45.828 30.889 1 48.79 ? H173 RET 317 A 1 HETATM 40 H H181 RET . . . R 4 14.824 50.325 32.283 1 54.62 ? H181 RET 317 A 1 HETATM 41 H H182 RET . . . R 4 15.899 49.418 32.937 1 54.62 ? H182 RET 317 A 1 HETATM 42 H H183 RET . . . R 4 14.398 49.037 33.035 1 54.62 ? H183 RET 317 A 1 HETATM 43 H H191 RET . . . R 4 18.183 45.799 34.461 1 49.91 ? H191 RET 317 A 1 HETATM 44 H H192 RET . . . R 4 16.767 46.465 34.743 1 49.91 ? H192 RET 317 A 1 HETATM 45 H H193 RET . . . R 4 17.243 45.216 35.604 1 49.91 ? H193 RET 317 A 1 HETATM 46 H H201 RET . . . R 4 19.586 42.327 36.23 1 58.65 ? H201 RET 317 A 1 HETATM 47 H H202 RET . . . R 4 19.244 41.365 37.435 1 58.65 ? H202 RET 317 A 1 HETATM 48 H H203 RET . . . R 4 20.483 41.056 36.506 1 58.65 ? H203 RET 317 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 397 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 48 #