data_1QKP # _model_server_result.job_id skCKH9e3ILTJ4cGFcvfNwg _model_server_result.datetime_utc '2025-04-24 02:16:59' _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 1qkp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":300}' # _entry.id 1QKP # _exptl.entry_id 1QKP _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 1QKP _cell.length_a 61.06 _cell.length_b 61.06 _cell.length_c 110.57 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1QKP _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details PQS _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 _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' 3_565 -x+y,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -30.53 52.879511 0 3 'crystal symmetry operation' 2_665 -y+1,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 30.53 52.879511 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 # 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 B C15 RET . A RET 300 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A NZ LYS 216 A LYS 216 1_555 B C15 RET . A RET 300 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.332 ? # _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 1QKP _atom_sites.fract_transf_matrix[1][1] 0.016377 _atom_sites.fract_transf_matrix[1][2] 0.009455 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018911 _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] 0.009044 _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 1 300 300 RET RET . C 3 HOH A 1 2001 2001 HOH HOH . C 3 HOH A 2 2002 2002 HOH HOH . C 3 HOH A 3 2003 2003 HOH HOH . C 3 HOH A 4 2004 2004 HOH HOH . C 3 HOH A 5 2005 2005 HOH HOH . C 3 HOH A 6 2006 2006 HOH HOH . C 3 HOH A 7 2007 2007 HOH HOH . C 3 HOH A 8 2008 2008 HOH HOH . C 3 HOH A 9 2009 2009 HOH HOH . C 3 HOH A 10 2010 2010 HOH HOH . C 3 HOH A 11 2011 2011 HOH HOH . C 3 HOH A 12 2012 2012 HOH HOH . C 3 HOH A 13 2013 2013 HOH HOH . C 3 HOH A 14 2014 2014 HOH HOH . C 3 HOH A 15 2015 2015 HOH HOH . C 3 HOH A 16 2016 2016 HOH HOH . C 3 HOH A 17 2017 2017 HOH HOH . C 3 HOH A 18 2018 2018 HOH HOH . C 3 HOH A 19 2019 2019 HOH HOH . C 3 HOH A 20 2020 2020 HOH HOH . C 3 HOH A 21 2021 2021 HOH HOH . C 3 HOH A 22 2022 2022 HOH HOH . C 3 HOH A 23 2023 2023 HOH HOH . C 3 HOH A 24 2024 2024 HOH HOH . C 3 HOH A 25 2025 2025 HOH HOH . C 3 HOH A 26 2026 2026 HOH HOH . C 3 HOH A 27 2027 2027 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 . A . B 2 14.882 45.302 -0.368 0.65 25.49 ? C1 RET 300 A 1 HETATM 2 C C1 RET . B . B 2 14.825 45.274 -0.33 0.35 23.98 ? C1 RET 300 A 1 HETATM 3 C C2 RET . A . B 2 14.428 46.263 -1.509 0.65 26.68 ? C2 RET 300 A 1 HETATM 4 C C2 RET . B . B 2 14.44 46.257 -1.501 0.35 24.73 ? C2 RET 300 A 1 HETATM 5 C C3 RET . A . B 2 14.967 47.627 -1.483 0.65 26.42 ? C3 RET 300 A 1 HETATM 6 C C3 RET . B . B 2 15.001 47.609 -1.427 0.35 24.7 ? C3 RET 300 A 1 HETATM 7 C C4 RET . A . B 2 14.708 48.319 -0.105 0.65 26.54 ? C4 RET 300 A 1 HETATM 8 C C4 RET . B . B 2 14.661 48.289 -0.066 0.35 24.89 ? C4 RET 300 A 1 HETATM 9 C C5 RET . A . B 2 15.159 47.45 1.056 0.65 24.96 ? C5 RET 300 A 1 HETATM 10 C C5 RET . B . B 2 15.044 47.404 1.115 0.35 23.92 ? C5 RET 300 A 1 HETATM 11 C C6 RET . A . B 2 15.255 46.067 0.976 0.65 25.51 ? C6 RET 300 A 1 HETATM 12 C C6 RET . B . B 2 15.135 46.015 1.033 0.35 24.18 ? C6 RET 300 A 1 HETATM 13 C C7 RET . A . B 2 15.727 45.337 2.191 0.65 23.99 ? C7 RET 300 A 1 HETATM 14 C C7 RET . B . B 2 15.561 45.239 2.238 0.35 23.51 ? C7 RET 300 A 1 HETATM 15 C C8 RET . A . B 2 15.93 44.026 2.438 0.65 22.93 ? C8 RET 300 A 1 HETATM 16 C C8 RET . B . B 2 15.755 43.898 2.414 0.35 23.59 ? C8 RET 300 A 1 HETATM 17 C C9 RET . A . B 2 16.442 43.415 3.659 0.65 24.55 ? C9 RET 300 A 1 HETATM 18 C C9 RET . B . B 2 16.265 43.225 3.608 0.35 24.87 ? C9 RET 300 A 1 HETATM 19 C C10 RET . A . B 2 16.554 42.06 3.654 0.65 24.65 ? C10 RET 300 A 1 HETATM 20 C C10 RET . B . B 2 16.406 41.871 3.564 0.35 25.65 ? C10 RET 300 A 1 HETATM 21 C C11 RET . A . B 2 17.035 41.197 4.687 0.65 25.77 ? C11 RET 300 A 1 HETATM 22 C C11 RET . B . B 2 16.932 41.041 4.602 0.35 26.6 ? C11 RET 300 A 1 HETATM 23 C C12 RET . A . B 2 17.023 39.861 4.508 0.65 24.8 ? C12 RET 300 A 1 HETATM 24 C C12 RET . B . B 2 17.071 39.684 4.615 0.35 26.82 ? C12 RET 300 A 1 HETATM 25 C C13 RET . A . B 2 17.42 38.83 5.394 0.65 27.05 ? C13 RET 300 A 1 HETATM 26 C C13 RET . B . B 2 17.647 38.963 5.743 0.35 28.33 ? C13 RET 300 A 1 HETATM 27 C C14 RET . A . B 2 17.193 37.573 4.891 0.65 25.83 ? C14 RET 300 A 1 HETATM 28 C C14 RET . B . B 2 17.747 37.595 5.77 0.35 28.43 ? C14 RET 300 A 1 HETATM 29 C C15 RET . A . B 2 17.388 36.334 5.502 0.65 29.6 ? C15 RET 300 A 1 HETATM 30 C C15 RET . B . B 2 17.407 36.58 4.898 0.35 30.08 ? C15 RET 300 A 1 HETATM 31 C C16 RET . A . B 2 13.713 44.317 -0.158 0.65 24.79 ? C16 RET 300 A 1 HETATM 32 C C16 RET . B . B 2 13.605 44.329 -0.191 0.35 23.46 ? C16 RET 300 A 1 HETATM 33 C C17 RET . A . B 2 16.082 44.53 -0.981 0.65 25.56 ? C17 RET 300 A 1 HETATM 34 C C17 RET . B . B 2 16.063 44.473 -0.831 0.35 23.44 ? C17 RET 300 A 1 HETATM 35 C C18 RET . A . B 2 15.484 48.286 2.281 0.65 25.47 ? C18 RET 300 A 1 HETATM 36 C C18 RET . B . B 2 15.304 48.235 2.34 0.35 23.9 ? C18 RET 300 A 1 HETATM 37 C C19 RET . A . B 2 16.818 44.279 4.837 0.65 23.02 ? C19 RET 300 A 1 HETATM 38 C C19 RET . B . B 2 16.653 44.05 4.814 0.35 24.3 ? C19 RET 300 A 1 HETATM 39 C C20 RET . A . B 2 17.968 39.148 6.772 0.65 23.46 ? C20 RET 300 A 1 HETATM 40 C C20 RET . B . B 2 18.133 39.73 6.921 0.35 25.44 ? C20 RET 300 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 391 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 40 #