data_4PXK # _model_server_result.job_id ueamuZILCATFGN4kfSgmbg _model_server_result.datetime_utc '2024-10-10 03:27:43' _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 4pxk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 4PXK # _exptl.entry_id 4PXK _exptl.method 'X-RAY DIFFRACTION' # _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 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 4PXK _cell.length_a 102.854 _cell.length_b 102.854 _cell.length_c 60.003 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PXK _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 2_445 -y-1,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -51.427 -89.074177 0 3 'crystal symmetry operation' 3_545 -x+y,-x-1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 51.427 -89.074177 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 220 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 220 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _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 1.321 _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 4PXK _atom_sites.fract_transf_matrix[1][1] 0.009723 _atom_sites.fract_transf_matrix[1][2] 0.005613 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011227 _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] 0.016666 _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 RET A 1 301 220 RET LYR . C 3 LFA A 1 302 101 LFA LFA . D 3 LFA A 1 303 102 LFA LFA . E 3 LFA A 1 304 103 LFA LFA . F 3 LFA A 1 305 104 LFA LFA . G 3 LFA A 1 306 105 LFA LFA . H 3 LFA A 1 307 106 LFA LFA . I 3 LFA A 1 308 107 LFA LFA . J 3 LFA A 1 309 108 LFA LFA . K 3 LFA A 1 310 109 LFA LFA . L 3 LFA A 1 311 111 LFA LFA . M 3 LFA A 1 312 112 LFA LFA . N 3 LFA A 1 313 113 LFA LFA . O 3 LFA A 1 314 114 LFA LFA . P 3 LFA A 1 315 115 LFA LFA . Q 3 LFA A 1 316 116 LFA LFA . R 3 LFA A 1 317 117 LFA LFA . S 4 SO4 A 1 318 201 SO4 SO4 . T 4 SO4 A 1 319 202 SO4 SO4 . U 3 LFA A 1 320 1 LFA LFA . V 3 LFA A 1 321 2 LFA LFA . W 3 LFA A 1 322 3 LFA LFA . X 5 HOH A 1 401 1 HOH HOH . X 5 HOH A 2 402 2 HOH HOH . X 5 HOH A 3 403 3 HOH HOH . X 5 HOH A 4 404 4 HOH HOH . X 5 HOH A 5 405 5 HOH HOH . X 5 HOH A 6 406 6 HOH HOH . X 5 HOH A 7 407 7 HOH HOH . X 5 HOH A 8 408 8 HOH HOH . X 5 HOH A 9 409 9 HOH HOH . X 5 HOH A 10 410 10 HOH HOH . X 5 HOH A 11 411 11 HOH HOH . X 5 HOH A 12 412 12 HOH HOH . X 5 HOH A 13 413 13 HOH HOH . X 5 HOH A 14 414 14 HOH HOH . X 5 HOH A 15 415 15 HOH HOH . X 5 HOH A 16 416 16 HOH HOH . X 5 HOH A 17 417 1 HOH HOH . X 5 HOH A 18 418 2 HOH HOH . X 5 HOH A 19 419 3 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 . . . B 2 -14.898 -48.63 -31.775 1 27.25 ? C1 RET 301 A 1 HETATM 2 C C2 RET . . . B 2 -15.638 -49.199 -33.005 1 24.72 ? C2 RET 301 A 1 HETATM 3 C C3 RET . . . B 2 -16.279 -50.532 -32.655 1 27.14 ? C3 RET 301 A 1 HETATM 4 C C4 RET . . . B 2 -17.294 -50.176 -31.552 1 22.36 ? C4 RET 301 A 1 HETATM 5 C C5 RET . . . B 2 -16.739 -49.495 -30.315 1 24.45 ? C5 RET 301 A 1 HETATM 6 C C6 RET . . . B 2 -15.621 -48.776 -30.392 1 21.7 ? C6 RET 301 A 1 HETATM 7 C C7 RET . . . B 2 -15.136 -48.159 -29.16 1 24.86 ? C7 RET 301 A 1 HETATM 8 C C8 RET . . . B 2 -14.013 -47.401 -29.069 1 27.13 ? C8 RET 301 A 1 HETATM 9 C C9 RET . . . B 2 -13.574 -46.825 -27.843 1 28.89 ? C9 RET 301 A 1 HETATM 10 C C10 RET . . . B 2 -12.42 -46.065 -27.839 1 25.59 ? C10 RET 301 A 1 HETATM 11 C C11 RET . . . B 2 -11.916 -45.458 -26.667 1 29.22 ? C11 RET 301 A 1 HETATM 12 C C12 RET . . . B 2 -10.737 -44.8 -26.98 1 26.37 ? C12 RET 301 A 1 HETATM 13 C C13 RET . . . B 2 -9.901 -44.164 -26.058 1 30.19 ? C13 RET 301 A 1 HETATM 14 C C14 RET . . . B 2 -8.742 -43.534 -26.515 1 35.74 ? C14 RET 301 A 1 HETATM 15 C C15 RET . . . B 2 -7.848 -42.88 -25.683 1 37.82 ? C15 RET 301 A 1 HETATM 16 C C16 RET . . . B 2 -13.884 -49.739 -31.443 1 23.65 ? C16 RET 301 A 1 HETATM 17 C C17 RET . . . B 2 -14.364 -47.251 -32.088 1 22.04 ? C17 RET 301 A 1 HETATM 18 C C18 RET . . . B 2 -17.525 -49.623 -29.014 1 21.37 ? C18 RET 301 A 1 HETATM 19 C C19 RET . . . B 2 -14.421 -46.978 -26.601 1 23.09 ? C19 RET 301 A 1 HETATM 20 C C20 RET . . . B 2 -10.434 -43.873 -24.667 1 25.58 ? C20 RET 301 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #