data_1BRD # _model_server_result.job_id SqliAEZj0Cy5-tWvDY7K3w _model_server_result.datetime_utc '2024-12-04 18:47:52' _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 1brd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":249}' # _entry.id 1BRD # _exptl.entry_id 1BRD _exptl.method 'ELECTRON CRYSTALLOGRAPHY' # _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 1BRD _cell.length_a 62.45 _cell.length_b 62.45 _cell.length_c 100 _cell.Z_PDB 3 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1BRD _symmetry.cell_setting ? _symmetry.Int_Tables_number 143 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3' # _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 _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_555 -y,x-y,z -0.5 -0.866036 0 0.866015 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866036 0 -0.866015 -0.5 0 0 0 1 0 0 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 216 _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 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 249 _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 1.343 _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 257 n n C1 C6 RET sing 258 n n C1 C16 RET sing 259 n n C1 C17 RET sing 260 n n C2 C3 RET sing 261 n n C2 H21 RET sing 262 n n C2 H22 RET sing 263 n n C3 C4 RET sing 264 n n C3 H31 RET sing 265 n n C3 H32 RET sing 266 n n C4 C5 RET sing 267 n n C4 H41 RET sing 268 n n C4 H42 RET sing 269 n n C5 C6 RET doub 270 n n C5 C18 RET sing 271 n n C6 C7 RET sing 272 n n C7 C8 RET doub 273 e n C7 H7 RET sing 274 n n C8 C9 RET sing 275 n n C8 H8 RET sing 276 n n C9 C10 RET doub 277 e n C9 C19 RET sing 278 n n C10 C11 RET sing 279 n n C10 H10 RET sing 280 n n C11 C12 RET doub 281 e n C11 H11 RET sing 282 n n C12 C13 RET sing 283 n n C12 H12 RET sing 284 n n C13 C14 RET doub 285 e n C13 C20 RET sing 286 n n C14 C15 RET sing 287 n n C14 H14 RET sing 288 n n C15 O1 RET doub 289 n n C15 H15 RET sing 290 n n C16 H161 RET sing 291 n n C16 H162 RET sing 292 n n C16 H163 RET sing 293 n n C17 H171 RET sing 294 n n C17 H172 RET sing 295 n n C17 H173 RET sing 296 n n C18 H181 RET sing 297 n n C18 H182 RET sing 298 n n C18 H183 RET sing 299 n n C19 H191 RET sing 300 n n C19 H192 RET sing 301 n n C19 H193 RET sing 302 n n C20 H201 RET sing 303 n n C20 H202 RET sing 304 n n C20 H203 RET sing 305 n n # _atom_sites.entry_id 1BRD _atom_sites.fract_transf_matrix[1][1] 0.016013 _atom_sites.fract_transf_matrix[1][2] 0.009245 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01849 _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] 0.01 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id RET _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 249 _pdbx_nonpoly_scheme.auth_seq_num 216 _pdbx_nonpoly_scheme.pdb_mon_id RET _pdbx_nonpoly_scheme.auth_mon_id RET _pdbx_nonpoly_scheme.pdb_ins_code . # 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 15.614 10.375 -0.024 1 20 ? C1 RET 249 A 1 HETATM 2 C C2 RET . . . B 2 15.522 11.757 -1.102 1 20 ? C2 RET 249 A 1 HETATM 3 C C3 RET . . . B 2 14.215 12.156 -1.407 1 20 ? C3 RET 249 A 1 HETATM 4 C C4 RET . . . B 2 13.559 12.189 0.075 1 20 ? C4 RET 249 A 1 HETATM 5 C C5 RET . . . B 2 14.745 11.856 1.316 1 20 ? C5 RET 249 A 1 HETATM 6 C C6 RET . . . B 2 15.136 10.599 1.503 1 20 ? C6 RET 249 A 1 HETATM 7 C C7 RET . . . B 2 15.247 9.911 3.046 1 20 ? C7 RET 249 A 1 HETATM 8 C C8 RET . . . B 2 15.613 8.64 3.326 1 20 ? C8 RET 249 A 1 HETATM 9 C C9 RET . . . B 2 15.738 7.944 4.865 1 20 ? C9 RET 249 A 1 HETATM 10 C C10 RET . . . B 2 16.105 6.688 4.981 1 20 ? C10 RET 249 A 1 HETATM 11 C C11 RET . . . B 2 16.394 5.503 6.069 1 20 ? C11 RET 249 A 1 HETATM 12 C C12 RET . . . B 2 16.771 4.287 5.726 1 20 ? C12 RET 249 A 1 HETATM 13 C C13 RET . . . B 2 17.113 2.971 6.667 1 20 ? C13 RET 249 A 1 HETATM 14 C C14 RET . . . B 2 17.488 1.864 6.091 1 20 ? C14 RET 249 A 1 HETATM 15 C C15 RET . . . B 2 17.853 0.467 6.913 1 20 ? C15 RET 249 A 1 HETATM 16 C C16 RET . . . B 2 16.88 9.755 -0.022 1 20 ? C16 RET 249 A 1 HETATM 17 C C17 RET . . . B 2 14.664 9.649 -0.797 1 20 ? C17 RET 249 A 1 HETATM 18 C C18 RET . . . B 2 15.29 13.009 2.239 1 20 ? C18 RET 249 A 1 HETATM 19 C C19 RET . . . B 2 15.426 8.733 6.093 1 20 ? C19 RET 249 A 1 HETATM 20 C C20 RET . . . B 2 17.046 2.901 8.214 1 20 ? C20 RET 249 A 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 20 #