data_4JR8 # _model_server_result.job_id icEzr9i7t5z7bxCbyj89Eg _model_server_result.datetime_utc '2024-11-24 08:43:58' _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 4jr8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 4JR8 # _exptl.entry_id 4JR8 _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 4JR8 _cell.length_a 106.21 _cell.length_b 106.21 _cell.length_c 60.21 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4JR8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _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,C,D _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_565 -y,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -53.105 91.980558 0 3 'crystal symmetry operation' 3_455 -x+y-1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -106.21 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 220 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 220 _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 301 _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 1.35 _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 393 n n C1 C6 RET sing 394 n n C1 C16 RET sing 395 n n C1 C17 RET sing 396 n n C2 C3 RET sing 397 n n C2 H21 RET sing 398 n n C2 H22 RET sing 399 n n C3 C4 RET sing 400 n n C3 H31 RET sing 401 n n C3 H32 RET sing 402 n n C4 C5 RET sing 403 n n C4 H41 RET sing 404 n n C4 H42 RET sing 405 n n C5 C6 RET doub 406 n n C5 C18 RET sing 407 n n C6 C7 RET sing 408 n n C7 C8 RET doub 409 e n C7 H7 RET sing 410 n n C8 C9 RET sing 411 n n C8 H8 RET sing 412 n n C9 C10 RET doub 413 e n C9 C19 RET sing 414 n n C10 C11 RET sing 415 n n C10 H10 RET sing 416 n n C11 C12 RET doub 417 e n C11 H11 RET sing 418 n n C12 C13 RET sing 419 n n C12 H12 RET sing 420 n n C13 C14 RET doub 421 e n C13 C20 RET sing 422 n n C14 C15 RET sing 423 n n C14 H14 RET sing 424 n n C15 O1 RET doub 425 n n C15 H15 RET sing 426 n n C16 H161 RET sing 427 n n C16 H162 RET sing 428 n n C16 H163 RET sing 429 n n C17 H171 RET sing 430 n n C17 H172 RET sing 431 n n C17 H173 RET sing 432 n n C18 H181 RET sing 433 n n C18 H182 RET sing 434 n n C18 H183 RET sing 435 n n C19 H191 RET sing 436 n n C19 H192 RET sing 437 n n C19 H193 RET sing 438 n n C20 H201 RET sing 439 n n C20 H202 RET sing 440 n n C20 H203 RET sing 441 n n # _atom_sites.entry_id 4JR8 _atom_sites.fract_transf_matrix[1][1] 0.009415 _atom_sites.fract_transf_matrix[1][2] 0.005436 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010872 _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] 0.016609 _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 1 301 250 RET RET . C 3 22B A 1 302 270 22B 22B . D 4 HOH A 1 601 601 HOH HOH . D 4 HOH A 2 602 602 HOH HOH . D 4 HOH A 3 603 603 HOH HOH . D 4 HOH A 4 604 604 HOH HOH . D 4 HOH A 5 605 605 HOH HOH . D 4 HOH A 6 606 606 HOH HOH . D 4 HOH A 7 607 607 HOH HOH . D 4 HOH A 8 608 608 HOH HOH . D 4 HOH A 9 609 609 HOH HOH . D 4 HOH A 10 610 610 HOH HOH . D 4 HOH A 11 611 611 HOH HOH . D 4 HOH A 12 612 612 HOH HOH . D 4 HOH A 13 613 613 HOH HOH . D 4 HOH A 14 614 614 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 . . . B 2 -37.389 39.835 -1.552 1 27.34 ? C1 RET 301 A 1 HETATM 2 C C2 RET . . . B 2 -37.833 40.779 -2.744 1 27.52 ? C2 RET 301 A 1 HETATM 3 C C3 RET . . . B 2 -37.399 42.163 -2.723 1 28.67 ? C3 RET 301 A 1 HETATM 4 C C4 RET . . . B 2 -37.485 42.85 -1.378 1 26.03 ? C4 RET 301 A 1 HETATM 5 C C5 RET . . . B 2 -37.017 42.082 -0.119 1 26.28 ? C5 RET 301 A 1 HETATM 6 C C6 RET . . . B 2 -36.97 40.628 -0.163 1 26.22 ? C6 RET 301 A 1 HETATM 7 C C7 RET . . . B 2 -36.49 39.873 1.135 1 25.28 ? C7 RET 301 A 1 HETATM 8 C C8 RET . . . B 2 -36.36 38.532 1.329 1 23.99 ? C8 RET 301 A 1 HETATM 9 C C9 RET . . . B 2 -35.9 37.866 2.545 1 24.9 ? C9 RET 301 A 1 HETATM 10 C C10 RET . . . B 2 -35.834 36.482 2.452 1 21.02 ? C10 RET 301 A 1 HETATM 11 C C11 RET . . . B 2 -35.386 35.563 3.477 1 21.08 ? C11 RET 301 A 1 HETATM 12 C C12 RET . . . B 2 -35.39 34.239 3.249 1 20.25 ? C12 RET 301 A 1 HETATM 13 C C13 RET . . . B 2 -34.954 33.201 4.196 1 20.29 ? C13 RET 301 A 1 HETATM 14 C C14 RET . . . B 2 -35.146 31.922 3.733 1 18.27 ? C14 RET 301 A 1 HETATM 15 C C15 RET . . . B 2 -34.996 30.657 4.45 1 21.51 ? C15 RET 301 A 1 HETATM 16 C C16 RET . . . B 2 -38.64 38.951 -1.373 1 26.42 ? C16 RET 301 A 1 HETATM 17 C C17 RET . . . B 2 -36.225 38.995 -2.116 1 27.07 ? C17 RET 301 A 1 HETATM 18 C C18 RET . . . B 2 -36.651 42.911 1.116 1 23.44 ? C18 RET 301 A 1 HETATM 19 C C19 RET . . . B 2 -35.506 38.651 3.805 1 23.04 ? C19 RET 301 A 1 HETATM 20 C C20 RET . . . B 2 -34.458 33.577 5.593 1 20.39 ? C20 RET 301 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 421 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 20 #