data_5JJJ # _model_server_result.job_id pUvTJqcOR2tVwvsWf3eguw _model_server_result.datetime_utc '2024-11-18 12:31:25' _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 5jjj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 5JJJ # _exptl.entry_id 5JJJ _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 120 _cell.entry_id 5JJJ _cell.length_a 66.31 _cell.length_b 66.31 _cell.length_c 170.081 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JJJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 172 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 64' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 -33.155 57.426145 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 204 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 205 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _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 301 _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 1.472 _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 5JJJ _atom_sites.fract_transf_matrix[1][1] 0.015081 _atom_sites.fract_transf_matrix[1][2] 0.008707 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017414 _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] 0.00588 _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 C 3 RET A 1 301 305 RET RET . D 4 LFA A 1 302 1 LFA LFA . E 4 LFA A 1 303 2 LFA LFA . F 4 LFA A 1 304 3 LFA LFA . G 4 LFA A 1 305 4 LFA LFA . H 4 LFA A 1 306 5 LFA LFA . I 4 LFA A 1 307 6 LFA LFA . J 4 LFA A 1 308 7 LFA LFA . K 4 LFA A 1 309 8 LFA LFA . L 5 HOH A 1 401 8 HOH HOH . L 5 HOH A 2 402 47 HOH HOH . L 5 HOH A 3 403 99 HOH HOH . L 5 HOH A 4 404 17 HOH HOH . L 5 HOH A 5 405 85 HOH HOH . L 5 HOH A 6 406 30 HOH HOH . L 5 HOH A 7 407 34 HOH HOH . L 5 HOH A 8 408 16 HOH HOH . L 5 HOH A 9 409 107 HOH HOH . L 5 HOH A 10 410 57 HOH HOH . L 5 HOH A 11 411 7 HOH HOH . L 5 HOH A 12 412 25 HOH HOH . L 5 HOH A 13 413 2 HOH HOH . L 5 HOH A 14 414 111 HOH HOH . L 5 HOH A 15 415 90 HOH HOH . L 5 HOH A 16 416 38 HOH HOH . L 5 HOH A 17 417 59 HOH HOH . L 5 HOH A 18 418 27 HOH HOH . L 5 HOH A 19 419 82 HOH HOH . L 5 HOH A 20 420 91 HOH HOH . L 5 HOH A 21 421 114 HOH HOH . L 5 HOH A 22 422 65 HOH HOH . L 5 HOH A 23 423 93 HOH HOH . L 5 HOH A 24 424 43 HOH HOH . M 5 HOH B 1 201 109 HOH HOH . M 5 HOH B 2 202 113 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 . . . C 3 -38.34 33.931 -4.963 1 45.62 ? C1 RET 301 A 1 HETATM 2 C C2 RET . . . C 3 -38.365 34.875 -6.236 1 34.08 ? C2 RET 301 A 1 HETATM 3 C C3 RET . . . C 3 -39.069 36.105 -5.657 1 42.64 ? C3 RET 301 A 1 HETATM 4 C C4 RET . . . C 3 -37.989 36.489 -4.545 1 47.65 ? C4 RET 301 A 1 HETATM 5 C C5 RET . . . C 3 -37.597 35.661 -3.529 1 45.24 ? C5 RET 301 A 1 HETATM 6 C C6 RET . . . C 3 -37.721 34.305 -3.743 1 41.61 ? C6 RET 301 A 1 HETATM 7 C C7 RET . . . C 3 -37.348 33.513 -2.641 1 36.79 ? C7 RET 301 A 1 HETATM 8 C C8 RET . . . C 3 -37.447 32.003 -2.734 1 34.06 ? C8 RET 301 A 1 HETATM 9 C C9 RET . . . C 3 -37.048 31.196 -1.54 1 37.79 ? C9 RET 301 A 1 HETATM 10 C C10 RET . . . C 3 -37.179 29.716 -1.723 1 39.09 ? C10 RET 301 A 1 HETATM 11 C C11 RET . . . C 3 -36.802 28.835 -0.575 1 39.17 ? C11 RET 301 A 1 HETATM 12 C C12 RET . . . C 3 -37.032 27.408 -1.023 1 40.53 ? C12 RET 301 A 1 HETATM 13 C C13 RET . . . C 3 -36.721 26.334 -0.007 1 45.6 ? C13 RET 301 A 1 HETATM 14 C C14 RET . . . C 3 -36.95 24.918 -0.452 1 47.08 ? C14 RET 301 A 1 HETATM 15 C C15 RET . . . C 3 -36.66 23.84 0.536 1 51.81 ? C15 RET 301 A 1 HETATM 16 C C16 RET . . . C 3 -39.701 33.274 -4.739 1 44.55 ? C16 RET 301 A 1 HETATM 17 C C17 RET . . . C 3 -37.462 32.877 -5.662 1 45.16 ? C17 RET 301 A 1 HETATM 18 C C18 RET . . . C 3 -37.134 36.171 -2.311 1 42.57 ? C18 RET 301 A 1 HETATM 19 C C19 RET . . . C 3 -36.504 31.832 -0.266 1 29.69 ? C19 RET 301 A 1 HETATM 20 C C20 RET . . . C 3 -36.129 26.686 1.355 1 39.79 ? C20 RET 301 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 20 #