data_5G54 # _model_server_result.job_id ydi0E0BtQb1Fro56rhGTXg _model_server_result.datetime_utc '2024-11-17 21:30:08' _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 5g54 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":1277}' # _entry.id 5G54 # _exptl.entry_id 5G54 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 4 _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 131.16 _cell.angle_gamma 90 _cell.entry_id 5G54 _cell.length_a 102.725 _cell.length_b 49.434 _cell.length_c 77.027 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5G54 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _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 L _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 238 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 235 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id L _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 1277 _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 1.272 _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 330 n n C1 C6 RET sing 331 n n C1 C16 RET sing 332 n n C1 C17 RET sing 333 n n C2 C3 RET sing 334 n n C2 H21 RET sing 335 n n C2 H22 RET sing 336 n n C3 C4 RET sing 337 n n C3 H31 RET sing 338 n n C3 H32 RET sing 339 n n C4 C5 RET sing 340 n n C4 H41 RET sing 341 n n C4 H42 RET sing 342 n n C5 C6 RET doub 343 n n C5 C18 RET sing 344 n n C6 C7 RET sing 345 n n C7 C8 RET doub 346 e n C7 H7 RET sing 347 n n C8 C9 RET sing 348 n n C8 H8 RET sing 349 n n C9 C10 RET doub 350 e n C9 C19 RET sing 351 n n C10 C11 RET sing 352 n n C10 H10 RET sing 353 n n C11 C12 RET doub 354 e n C11 H11 RET sing 355 n n C12 C13 RET sing 356 n n C12 H12 RET sing 357 n n C13 C14 RET doub 358 e n C13 C20 RET sing 359 n n C14 C15 RET sing 360 n n C14 H14 RET sing 361 n n C15 O1 RET doub 362 n n C15 H15 RET sing 363 n n C16 H161 RET sing 364 n n C16 H162 RET sing 365 n n C16 H163 RET sing 366 n n C17 H171 RET sing 367 n n C17 H172 RET sing 368 n n C17 H173 RET sing 369 n n C18 H181 RET sing 370 n n C18 H182 RET sing 371 n n C18 H183 RET sing 372 n n C19 H191 RET sing 373 n n C19 H192 RET sing 374 n n C19 H193 RET sing 375 n n C20 H201 RET sing 376 n n C20 H202 RET sing 377 n n C20 H203 RET sing 378 n n # _atom_sites.entry_id 5G54 _atom_sites.fract_transf_matrix[1][1] 0.009735 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00851 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020229 _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] 0.017244 _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 CL A 1 1267 1267 CL CL . C 2 CL A 1 1268 1268 CL CL . D 3 OLA A 1 1269 1269 OLA OLA . E 3 OLA A 1 1270 1270 OLA OLA . F 3 OLA A 1 1271 1271 OLA OLA . G 3 OLA A 1 1272 1272 OLA OLA . H 3 OLA A 1 1273 1273 OLA OLA . I 3 OLA A 1 1274 1274 OLA OLA . J 3 OLA A 1 1275 1275 OLA OLA . K 3 OLA A 1 1276 1276 OLA OLA . L 4 RET A 1 1277 1277 RET RET . M 5 HOH A 1 2001 2001 HOH HOH . M 5 HOH A 2 2002 2002 HOH HOH . M 5 HOH A 3 2003 2003 HOH HOH . M 5 HOH A 4 2004 2004 HOH HOH . M 5 HOH A 5 2005 2005 HOH HOH . M 5 HOH A 6 2006 2006 HOH HOH . M 5 HOH A 7 2007 2007 HOH HOH . M 5 HOH A 8 2008 2008 HOH HOH . M 5 HOH A 9 2009 2009 HOH HOH . M 5 HOH A 10 2010 2010 HOH HOH . M 5 HOH A 11 2011 2011 HOH HOH . M 5 HOH A 12 2012 2012 HOH HOH . M 5 HOH A 13 2013 2013 HOH HOH . M 5 HOH A 14 2014 2014 HOH HOH . M 5 HOH A 15 2015 2015 HOH HOH . M 5 HOH A 16 2016 2016 HOH HOH . M 5 HOH A 17 2017 2017 HOH HOH . M 5 HOH A 18 2018 2018 HOH HOH . M 5 HOH A 19 2019 2019 HOH HOH . M 5 HOH A 20 2020 2020 HOH HOH . M 5 HOH A 21 2021 2021 HOH HOH . M 5 HOH A 22 2022 2022 HOH HOH . M 5 HOH A 23 2023 2023 HOH HOH . M 5 HOH A 24 2024 2024 HOH HOH . M 5 HOH A 25 2025 2025 HOH HOH . M 5 HOH A 26 2026 2026 HOH HOH . M 5 HOH A 27 2027 2027 HOH HOH . M 5 HOH A 28 2028 2028 HOH HOH . M 5 HOH A 29 2029 2029 HOH HOH . M 5 HOH A 30 2030 2030 HOH HOH . M 5 HOH A 31 2031 2031 HOH HOH . M 5 HOH A 32 2032 2032 HOH HOH . M 5 HOH A 33 2033 2033 HOH HOH . M 5 HOH A 34 2034 2034 HOH HOH . M 5 HOH A 35 2035 2035 HOH HOH . M 5 HOH A 36 2036 2036 HOH HOH . M 5 HOH A 37 2037 2037 HOH HOH . M 5 HOH A 38 2038 2038 HOH HOH . M 5 HOH A 39 2039 2039 HOH HOH . M 5 HOH A 40 2040 2040 HOH HOH . M 5 HOH A 41 2041 2041 HOH HOH . M 5 HOH A 42 2042 2042 HOH HOH . M 5 HOH A 43 2043 2043 HOH HOH . M 5 HOH A 44 2044 2044 HOH HOH . M 5 HOH A 45 2045 2045 HOH HOH . M 5 HOH A 46 2046 2046 HOH HOH . M 5 HOH A 47 2047 2047 HOH HOH . M 5 HOH A 48 2048 2048 HOH HOH . M 5 HOH A 49 2049 2049 HOH HOH . M 5 HOH A 50 2050 2050 HOH HOH . M 5 HOH A 51 2051 2051 HOH HOH . M 5 HOH A 52 2052 2052 HOH HOH . M 5 HOH A 53 2053 2053 HOH HOH . M 5 HOH A 54 2054 2054 HOH HOH . M 5 HOH A 55 2055 2055 HOH HOH . M 5 HOH A 56 2056 2056 HOH HOH . M 5 HOH A 57 2057 2057 HOH HOH . M 5 HOH A 58 2058 2058 HOH HOH . M 5 HOH A 59 2059 2059 HOH HOH . M 5 HOH A 60 2060 2060 HOH HOH . M 5 HOH A 61 2061 2061 HOH HOH . M 5 HOH A 62 2062 2062 HOH HOH . M 5 HOH A 63 2063 2063 HOH HOH . M 5 HOH A 64 2064 2064 HOH HOH . M 5 HOH A 65 2065 2065 HOH HOH . M 5 HOH A 66 2066 2066 HOH HOH . M 5 HOH A 67 2067 2067 HOH HOH . M 5 HOH A 68 2068 2068 HOH HOH . M 5 HOH A 69 2069 2069 HOH HOH . M 5 HOH A 70 2070 2070 HOH HOH . M 5 HOH A 71 2071 2071 HOH HOH . M 5 HOH A 72 2072 2072 HOH HOH . M 5 HOH A 73 2073 2073 HOH HOH . M 5 HOH A 74 2074 2074 HOH HOH . M 5 HOH A 75 2075 2075 HOH HOH . M 5 HOH A 76 2076 2076 HOH HOH . M 5 HOH A 77 2077 2077 HOH HOH . M 5 HOH A 78 2078 2078 HOH HOH . M 5 HOH A 79 2079 2079 HOH HOH . M 5 HOH A 80 2080 2080 HOH HOH . M 5 HOH A 81 2081 2081 HOH HOH . M 5 HOH A 82 2082 2082 HOH HOH . M 5 HOH A 83 2083 2083 HOH HOH . M 5 HOH A 84 2084 2084 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 . . . L 4 20.582 -7.641 5.088 1 10.62 ? C1 RET 1277 A 1 HETATM 2 C C2 RET . . . L 4 21.32 -8.581 6.069 1 10.24 ? C2 RET 1277 A 1 HETATM 3 C C3 RET . . . L 4 22.806 -8.56 5.945 1 9.92 ? C3 RET 1277 A 1 HETATM 4 C C4 RET . . . L 4 23.205 -8.934 4.552 1 10.59 ? C4 RET 1277 A 1 HETATM 5 C C5 RET . . . L 4 22.39 -8.226 3.445 1 10.77 ? C5 RET 1277 A 1 HETATM 6 C C6 RET . . . L 4 21.236 -7.564 3.708 1 10.02 ? C6 RET 1277 A 1 HETATM 7 C C7 RET . . . L 4 20.667 -6.772 2.606 1 9.7 ? C7 RET 1277 A 1 HETATM 8 C C8 RET . . . L 4 19.528 -6.083 2.637 1 10.66 ? C8 RET 1277 A 1 HETATM 9 C C9 RET . . . L 4 19.048 -5.264 1.516 1 10.47 ? C9 RET 1277 A 1 HETATM 10 C C10 RET . . . L 4 17.957 -4.535 1.813 1 11.23 ? C10 RET 1277 A 1 HETATM 11 C C11 RET . . . L 4 17.337 -3.612 0.889 1 11.06 ? C11 RET 1277 A 1 HETATM 12 C C12 RET . . . L 4 16.284 -2.928 1.234 1 11.21 ? C12 RET 1277 A 1 HETATM 13 C C13 RET . . . L 4 15.62 -1.954 0.35 1 12.2 ? C13 RET 1277 A 1 HETATM 14 C C14 RET . . . L 4 14.668 -1.233 0.986 1 14.37 ? C14 RET 1277 A 1 HETATM 15 C C15 RET . . . L 4 13.873 -0.131 0.453 1 14.83 ? C15 RET 1277 A 1 HETATM 16 C C16 RET . . . L 4 20.616 -6.218 5.695 1 10.67 ? C16 RET 1277 A 1 HETATM 17 C C17 RET . . . L 4 19.179 -8.257 4.987 1 10.6 ? C17 RET 1277 A 1 HETATM 18 C C18 RET . . . L 4 22.893 -8.439 2.029 1 9.97 ? C18 RET 1277 A 1 HETATM 19 C C19 RET . . . L 4 19.759 -5.263 0.202 1 10.55 ? C19 RET 1277 A 1 HETATM 20 C C20 RET . . . L 4 15.987 -1.68 -1.092 1 11.57 ? C20 RET 1277 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #