data_1Q5J # _model_server_result.job_id NHvgyAB00nkd3_eQwW6JSw _model_server_result.datetime_utc '2024-11-12 19:32:23' _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 1q5j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 1Q5J # _exptl.entry_id 1Q5J _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 113.41 _cell.angle_gamma 90 _cell.entry_id 1Q5J _cell.length_a 44.527 _cell.length_b 108.3 _cell.length_c 55.818 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Q5J _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _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 _struct_conn.pdbx_value_order covale ? covale1 A NZ LYS 216 A LYS 216 1_555 C C15 RET . A RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? covale ? covale2 B NZ LYS 216 B LYS 216 1_555 D C15 RET . B RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? # _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 243 n n C1 C6 RET sing 244 n n C1 C16 RET sing 245 n n C1 C17 RET sing 246 n n C2 C3 RET sing 247 n n C2 H21 RET sing 248 n n C2 H22 RET sing 249 n n C3 C4 RET sing 250 n n C3 H31 RET sing 251 n n C3 H32 RET sing 252 n n C4 C5 RET sing 253 n n C4 H41 RET sing 254 n n C4 H42 RET sing 255 n n C5 C6 RET doub 256 n n C5 C18 RET sing 257 n n C6 C7 RET sing 258 n n C7 C8 RET doub 259 e n C7 H7 RET sing 260 n n C8 C9 RET sing 261 n n C8 H8 RET sing 262 n n C9 C10 RET doub 263 e n C9 C19 RET sing 264 n n C10 C11 RET sing 265 n n C10 H10 RET sing 266 n n C11 C12 RET doub 267 e n C11 H11 RET sing 268 n n C12 C13 RET sing 269 n n C12 H12 RET sing 270 n n C13 C14 RET doub 271 e n C13 C20 RET sing 272 n n C14 C15 RET sing 273 n n C14 H14 RET sing 274 n n C15 O1 RET doub 275 n n C15 H15 RET sing 276 n n C16 H161 RET sing 277 n n C16 H162 RET sing 278 n n C16 H163 RET sing 279 n n C17 H171 RET sing 280 n n C17 H172 RET sing 281 n n C17 H173 RET sing 282 n n C18 H181 RET sing 283 n n C18 H182 RET sing 284 n n C18 H183 RET sing 285 n n C19 H191 RET sing 286 n n C19 H192 RET sing 287 n n C19 H193 RET sing 288 n n C20 H201 RET sing 289 n n C20 H202 RET sing 290 n n C20 H203 RET sing 291 n n # _atom_sites.entry_id 1Q5J _atom_sites.fract_transf_matrix[1][1] 0.022458 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.009723 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009234 _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] 0.019522 _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 2 RET A 1 301 301 RET RET . D 2 RET B 1 301 301 RET RET . E 3 HOH A 1 302 1 HOH HOH . E 3 HOH A 2 303 2 HOH HOH . E 3 HOH A 3 304 3 HOH HOH . E 3 HOH A 4 305 4 HOH HOH . E 3 HOH A 5 306 5 HOH HOH . E 3 HOH A 6 307 6 HOH HOH . E 3 HOH A 7 308 7 HOH HOH . E 3 HOH A 8 309 8 HOH HOH . E 3 HOH A 9 310 9 HOH HOH . E 3 HOH A 10 311 10 HOH HOH . E 3 HOH A 11 312 11 HOH HOH . E 3 HOH A 12 313 12 HOH HOH . E 3 HOH A 13 314 13 HOH HOH . E 3 HOH A 14 315 14 HOH HOH . E 3 HOH A 15 316 15 HOH HOH . E 3 HOH A 16 317 16 HOH HOH . E 3 HOH A 17 318 17 HOH HOH . E 3 HOH A 18 319 18 HOH HOH . E 3 HOH A 19 320 40 HOH HOH . E 3 HOH A 20 321 41 HOH HOH . E 3 HOH A 21 322 48 HOH HOH . E 3 HOH A 22 323 49 HOH HOH . E 3 HOH A 23 324 51 HOH HOH . E 3 HOH A 24 325 53 HOH HOH . E 3 HOH A 25 326 54 HOH HOH . E 3 HOH A 26 327 57 HOH HOH . E 3 HOH A 27 328 61 HOH HOH . E 3 HOH A 28 329 63 HOH HOH . E 3 HOH A 29 330 64 HOH HOH . E 3 HOH A 30 331 65 HOH HOH . E 3 HOH A 31 332 66 HOH HOH . E 3 HOH A 32 333 68 HOH HOH . F 3 HOH B 1 302 19 HOH HOH . F 3 HOH B 2 303 20 HOH HOH . F 3 HOH B 3 304 21 HOH HOH . F 3 HOH B 4 305 22 HOH HOH . F 3 HOH B 5 306 23 HOH HOH . F 3 HOH B 6 307 24 HOH HOH . F 3 HOH B 7 308 25 HOH HOH . F 3 HOH B 8 309 26 HOH HOH . F 3 HOH B 9 310 27 HOH HOH . F 3 HOH B 10 311 28 HOH HOH . F 3 HOH B 11 312 29 HOH HOH . F 3 HOH B 12 313 30 HOH HOH . F 3 HOH B 13 314 31 HOH HOH . F 3 HOH B 14 315 32 HOH HOH . F 3 HOH B 15 316 33 HOH HOH . F 3 HOH B 16 317 34 HOH HOH . F 3 HOH B 17 318 35 HOH HOH . F 3 HOH B 18 319 36 HOH HOH . F 3 HOH B 19 320 37 HOH HOH . F 3 HOH B 20 321 38 HOH HOH . F 3 HOH B 21 322 39 HOH HOH . F 3 HOH B 22 323 42 HOH HOH . F 3 HOH B 23 324 43 HOH HOH . F 3 HOH B 24 325 44 HOH HOH . F 3 HOH B 25 326 45 HOH HOH . F 3 HOH B 26 327 46 HOH HOH . F 3 HOH B 27 328 47 HOH HOH . F 3 HOH B 28 329 50 HOH HOH . F 3 HOH B 29 330 52 HOH HOH . F 3 HOH B 30 331 55 HOH HOH . F 3 HOH B 31 332 56 HOH HOH . F 3 HOH B 32 333 58 HOH HOH . F 3 HOH B 33 334 59 HOH HOH . F 3 HOH B 34 335 60 HOH HOH . F 3 HOH B 35 336 62 HOH HOH . F 3 HOH B 36 337 67 HOH HOH . F 3 HOH B 37 338 69 HOH HOH . F 3 HOH B 38 339 70 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 2 40.552 54.824 2.163 1 15.47 ? C1 RET 301 A 1 HETATM 2 C C2 RET . . . C 2 41.356 56.059 1.689 1 15.99 ? C2 RET 301 A 1 HETATM 3 C C3 RET . . . C 2 41.97 56.041 0.342 1 16.49 ? C3 RET 301 A 1 HETATM 4 C C4 RET . . . C 2 42.511 54.689 -0.155 1 16.92 ? C4 RET 301 A 1 HETATM 5 C C5 RET . . . C 2 41.733 53.415 0.269 1 16.13 ? C5 RET 301 A 1 HETATM 6 C C6 RET . . . C 2 40.821 53.472 1.342 1 16.01 ? C6 RET 301 A 1 HETATM 7 C C7 RET . . . C 2 40.141 52.17 1.631 1 16.69 ? C7 RET 301 A 1 HETATM 8 C C8 RET . . . C 2 39.212 51.822 2.571 1 17.48 ? C8 RET 301 A 1 HETATM 9 C C9 RET . . . C 2 38.572 50.543 2.783 1 17.89 ? C9 RET 301 A 1 HETATM 10 C C10 RET . . . C 2 37.705 50.602 3.83 1 18.81 ? C10 RET 301 A 1 HETATM 11 C C11 RET . . . C 2 36.926 49.438 4.247 1 22.01 ? C11 RET 301 A 1 HETATM 12 C C12 RET . . . C 2 36.14 49.729 5.314 1 22.78 ? C12 RET 301 A 1 HETATM 13 C C13 RET . . . C 2 35.26 48.772 5.96 1 24.62 ? C13 RET 301 A 1 HETATM 14 C C14 RET . . . C 2 34.614 49.39 7.004 1 25.18 ? C14 RET 301 A 1 HETATM 15 C C15 RET . . . C 2 33.667 48.767 7.879 1 25.18 ? C15 RET 301 A 1 HETATM 16 C C16 RET . . . C 2 40.934 54.651 3.681 1 15.65 ? C16 RET 301 A 1 HETATM 17 C C17 RET . . . C 2 39.064 55.344 2.044 1 13.78 ? C17 RET 301 A 1 HETATM 18 C C18 RET . . . C 2 42.151 52.276 -0.631 1 12.76 ? C18 RET 301 A 1 HETATM 19 C C19 RET . . . C 2 38.856 49.333 1.929 1 15.73 ? C19 RET 301 A 1 HETATM 20 C C20 RET . . . C 2 35.12 47.34 5.513 1 22.94 ? C20 RET 301 A 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #