data_6RF7 # _model_server_result.job_id -U-7es0D-YlyaosDcqumSQ _model_server_result.datetime_utc '2024-11-26 06:52:03' _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 6rf7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":306}' # _entry.id 6RF7 # _exptl.entry_id 6RF7 _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 6RF7 _cell.length_a 40.598 _cell.length_b 82.248 _cell.length_c 234.183 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RF7 _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 _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 G _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 255 _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 G _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 306 _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 1.448 _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 6RF7 _atom_sites.fract_transf_matrix[1][1] 0.024632 _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] 0.012158 _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] 0.00427 _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 1 LFA LFA . C 2 LFA A 1 302 2 LFA LFA . D 2 LFA A 1 303 3 LFA LFA . E 2 LFA A 1 304 4 LFA LFA . F 2 LFA A 1 305 5 LFA LFA . G 3 RET A 1 306 255 RET LYR . H 4 HOH A 1 401 12 HOH HOH . H 4 HOH A 2 402 11 HOH HOH . H 4 HOH A 3 403 4 HOH HOH . H 4 HOH A 4 404 7 HOH HOH . H 4 HOH A 5 405 1 HOH HOH . H 4 HOH A 6 406 5 HOH HOH . H 4 HOH A 7 407 10 HOH HOH . H 4 HOH A 8 408 9 HOH HOH . H 4 HOH A 9 409 2 HOH HOH . H 4 HOH A 10 410 13 HOH HOH . H 4 HOH A 11 411 6 HOH HOH . H 4 HOH A 12 412 8 HOH HOH . H 4 HOH A 13 413 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 . . . G 3 -2.098 25.576 27.381 1 66.81 ? C1 RET 306 A 1 HETATM 2 C C2 RET . . . G 3 -2.711 26.61 26.447 1 67 ? C2 RET 306 A 1 HETATM 3 C C3 RET . . . G 3 -1.926 27.908 26.477 1 64.29 ? C3 RET 306 A 1 HETATM 4 C C4 RET . . . G 3 -2.053 28.534 27.853 1 62.73 ? C4 RET 306 A 1 HETATM 5 C C5 RET . . . G 3 -1.723 27.521 28.925 1 63.34 ? C5 RET 306 A 1 HETATM 6 C C6 RET . . . G 3 -1.686 26.201 28.702 1 59.76 ? C6 RET 306 A 1 HETATM 7 C C7 RET . . . G 3 -1.236 25.324 29.804 1 57.8 ? C7 RET 306 A 1 HETATM 8 C C8 RET . . . G 3 -1.209 23.999 29.658 1 64.97 ? C8 RET 306 A 1 HETATM 9 C C9 RET . . . G 3 -0.755 23.113 30.75 1 62.13 ? C9 RET 306 A 1 HETATM 10 C C10 RET . . . G 3 -0.734 21.794 30.505 1 63.87 ? C10 RET 306 A 1 HETATM 11 C C11 RET . . . G 3 -0.274 20.814 31.487 1 54.2 ? C11 RET 306 A 1 HETATM 12 C C12 RET . . . G 3 -0.206 19.545 31.101 1 56.58 ? C12 RET 306 A 1 HETATM 13 C C13 RET . . . G 3 0.273 18.483 32.001 1 59.54 ? C13 RET 306 A 1 HETATM 14 C C14 RET . . . G 3 0.331 17.224 31.533 1 59.85 ? C14 RET 306 A 1 HETATM 15 C C15 RET . . . G 3 0.817 16.084 32.394 1 58.54 ? C15 RET 306 A 1 HETATM 16 C C16 RET . . . G 3 -3.141 24.49 27.637 1 73.77 ? C16 RET 306 A 1 HETATM 17 C C17 RET . . . G 3 -0.867 24.969 26.717 1 56.57 ? C17 RET 306 A 1 HETATM 18 C C18 RET . . . G 3 -1.435 28.043 30.301 1 70.75 ? C18 RET 306 A 1 HETATM 19 C C19 RET . . . G 3 -0.329 23.672 32.081 1 56.7 ? C19 RET 306 A 1 HETATM 20 C C20 RET . . . G 3 0.707 18.815 33.398 1 60.1 ? C20 RET 306 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 20 #