data_6L8J # _model_server_result.job_id ropv0VJUQ7w-PwGuNVgCFA _model_server_result.datetime_utc '2025-07-04 18:36:24' _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 6l8j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":602}' # _entry.id 6L8J # _exptl.entry_id 6L8J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 3 _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 90 _cell.entry_id 6L8J _cell.length_a 58.182 _cell.length_b 82.147 _cell.length_c 110.549 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6L8J _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 440 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 516 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id FE _struct_conn.ptnr2_label_comp_id HEM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id HEM _struct_conn.ptnr2_auth_seq_id 601 _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 2.601 _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 359 n n C1 C6 RET sing 360 n n C1 C16 RET sing 361 n n C1 C17 RET sing 362 n n C2 C3 RET sing 363 n n C2 H21 RET sing 364 n n C2 H22 RET sing 365 n n C3 C4 RET sing 366 n n C3 H31 RET sing 367 n n C3 H32 RET sing 368 n n C4 C5 RET sing 369 n n C4 H41 RET sing 370 n n C4 H42 RET sing 371 n n C5 C6 RET doub 372 n n C5 C18 RET sing 373 n n C6 C7 RET sing 374 n n C7 C8 RET doub 375 e n C7 H7 RET sing 376 n n C8 C9 RET sing 377 n n C8 H8 RET sing 378 n n C9 C10 RET doub 379 e n C9 C19 RET sing 380 n n C10 C11 RET sing 381 n n C10 H10 RET sing 382 n n C11 C12 RET doub 383 e n C11 H11 RET sing 384 n n C12 C13 RET sing 385 n n C12 H12 RET sing 386 n n C13 C14 RET doub 387 e n C13 C20 RET sing 388 n n C14 C15 RET sing 389 n n C14 H14 RET sing 390 n n C15 O1 RET doub 391 n n C15 H15 RET sing 392 n n C16 H161 RET sing 393 n n C16 H162 RET sing 394 n n C16 H163 RET sing 395 n n C17 H171 RET sing 396 n n C17 H172 RET sing 397 n n C17 H173 RET sing 398 n n C18 H181 RET sing 399 n n C18 H182 RET sing 400 n n C18 H183 RET sing 401 n n C19 H191 RET sing 402 n n C19 H192 RET sing 403 n n C19 H193 RET sing 404 n n C20 H201 RET sing 405 n n C20 H202 RET sing 406 n n C20 H203 RET sing 407 n n # _atom_sites.entry_id 6L8J _atom_sites.fract_transf_matrix[1][1] 0.017187 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012173 _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] 0.009046 _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 HEM A 1 601 601 HEM HEM . C 3 RET A 1 602 668 RET RET . D 4 HOH A 1 701 10 HOH HOH . D 4 HOH A 2 702 138 HOH HOH . D 4 HOH A 3 703 164 HOH HOH . D 4 HOH A 4 704 121 HOH HOH . D 4 HOH A 5 705 159 HOH HOH . D 4 HOH A 6 706 93 HOH HOH . D 4 HOH A 7 707 27 HOH HOH . D 4 HOH A 8 708 37 HOH HOH . D 4 HOH A 9 709 54 HOH HOH . D 4 HOH A 10 710 11 HOH HOH . D 4 HOH A 11 711 82 HOH HOH . D 4 HOH A 12 712 38 HOH HOH . D 4 HOH A 13 713 26 HOH HOH . D 4 HOH A 14 714 126 HOH HOH . D 4 HOH A 15 715 18 HOH HOH . D 4 HOH A 16 716 41 HOH HOH . D 4 HOH A 17 717 13 HOH HOH . D 4 HOH A 18 718 58 HOH HOH . D 4 HOH A 19 719 1 HOH HOH . D 4 HOH A 20 720 87 HOH HOH . D 4 HOH A 21 721 112 HOH HOH . D 4 HOH A 22 722 46 HOH HOH . D 4 HOH A 23 723 119 HOH HOH . D 4 HOH A 24 724 35 HOH HOH . D 4 HOH A 25 725 145 HOH HOH . D 4 HOH A 26 726 117 HOH HOH . D 4 HOH A 27 727 36 HOH HOH . D 4 HOH A 28 728 150 HOH HOH . D 4 HOH A 29 729 19 HOH HOH . D 4 HOH A 30 730 15 HOH HOH . D 4 HOH A 31 731 143 HOH HOH . D 4 HOH A 32 732 92 HOH HOH . D 4 HOH A 33 733 129 HOH HOH . D 4 HOH A 34 734 88 HOH HOH . D 4 HOH A 35 735 172 HOH HOH . D 4 HOH A 36 736 7 HOH HOH . D 4 HOH A 37 737 111 HOH HOH . D 4 HOH A 38 738 33 HOH HOH . D 4 HOH A 39 739 120 HOH HOH . D 4 HOH A 40 740 50 HOH HOH . D 4 HOH A 41 741 115 HOH HOH . D 4 HOH A 42 742 8 HOH HOH . D 4 HOH A 43 743 104 HOH HOH . D 4 HOH A 44 744 79 HOH HOH . D 4 HOH A 45 745 57 HOH HOH . D 4 HOH A 46 746 9 HOH HOH . D 4 HOH A 47 747 45 HOH HOH . D 4 HOH A 48 748 142 HOH HOH . D 4 HOH A 49 749 139 HOH HOH . D 4 HOH A 50 750 113 HOH HOH . D 4 HOH A 51 751 60 HOH HOH . D 4 HOH A 52 752 83 HOH HOH . D 4 HOH A 53 753 49 HOH HOH . D 4 HOH A 54 754 64 HOH HOH . D 4 HOH A 55 755 24 HOH HOH . D 4 HOH A 56 756 20 HOH HOH . D 4 HOH A 57 757 40 HOH HOH . D 4 HOH A 58 758 114 HOH HOH . D 4 HOH A 59 759 16 HOH HOH . D 4 HOH A 60 760 17 HOH HOH . D 4 HOH A 61 761 5 HOH HOH . D 4 HOH A 62 762 169 HOH HOH . D 4 HOH A 63 763 81 HOH HOH . D 4 HOH A 64 764 174 HOH HOH . D 4 HOH A 65 765 148 HOH HOH . D 4 HOH A 66 766 105 HOH HOH . D 4 HOH A 67 767 61 HOH HOH . D 4 HOH A 68 768 39 HOH HOH . D 4 HOH A 69 769 80 HOH HOH . D 4 HOH A 70 770 106 HOH HOH . D 4 HOH A 71 771 30 HOH HOH . D 4 HOH A 72 772 42 HOH HOH . D 4 HOH A 73 773 2 HOH HOH . D 4 HOH A 74 774 22 HOH HOH . D 4 HOH A 75 775 134 HOH HOH . D 4 HOH A 76 776 84 HOH HOH . D 4 HOH A 77 777 55 HOH HOH . D 4 HOH A 78 778 123 HOH HOH . D 4 HOH A 79 779 128 HOH HOH . D 4 HOH A 80 780 28 HOH HOH . D 4 HOH A 81 781 101 HOH HOH . D 4 HOH A 82 782 137 HOH HOH . D 4 HOH A 83 783 53 HOH HOH . D 4 HOH A 84 784 155 HOH HOH . D 4 HOH A 85 785 85 HOH HOH . D 4 HOH A 86 786 170 HOH HOH . D 4 HOH A 87 787 12 HOH HOH . D 4 HOH A 88 788 14 HOH HOH . D 4 HOH A 89 789 34 HOH HOH . D 4 HOH A 90 790 68 HOH HOH . D 4 HOH A 91 791 78 HOH HOH . D 4 HOH A 92 792 32 HOH HOH . D 4 HOH A 93 793 51 HOH HOH . D 4 HOH A 94 794 127 HOH HOH . D 4 HOH A 95 795 25 HOH HOH . D 4 HOH A 96 796 74 HOH HOH . D 4 HOH A 97 797 107 HOH HOH . D 4 HOH A 98 798 66 HOH HOH . D 4 HOH A 99 799 21 HOH HOH . D 4 HOH A 100 800 43 HOH HOH . D 4 HOH A 101 801 59 HOH HOH . D 4 HOH A 102 802 65 HOH HOH . D 4 HOH A 103 803 140 HOH HOH . D 4 HOH A 104 804 52 HOH HOH . D 4 HOH A 105 805 6 HOH HOH . D 4 HOH A 106 806 29 HOH HOH . D 4 HOH A 107 807 141 HOH HOH . D 4 HOH A 108 808 167 HOH HOH . D 4 HOH A 109 809 4 HOH HOH . D 4 HOH A 110 810 122 HOH HOH . D 4 HOH A 111 811 124 HOH HOH . D 4 HOH A 112 812 108 HOH HOH . D 4 HOH A 113 813 44 HOH HOH . D 4 HOH A 114 814 48 HOH HOH . D 4 HOH A 115 815 71 HOH HOH . D 4 HOH A 116 816 130 HOH HOH . D 4 HOH A 117 817 168 HOH HOH . D 4 HOH A 118 818 89 HOH HOH . D 4 HOH A 119 819 76 HOH HOH . D 4 HOH A 120 820 3 HOH HOH . D 4 HOH A 121 821 165 HOH HOH . D 4 HOH A 122 822 31 HOH HOH . D 4 HOH A 123 823 153 HOH HOH . D 4 HOH A 124 824 100 HOH HOH . D 4 HOH A 125 825 157 HOH HOH . D 4 HOH A 126 826 109 HOH HOH . D 4 HOH A 127 827 136 HOH HOH . D 4 HOH A 128 828 163 HOH HOH . D 4 HOH A 129 829 47 HOH HOH . D 4 HOH A 130 830 166 HOH HOH . D 4 HOH A 131 831 125 HOH HOH . D 4 HOH A 132 832 95 HOH HOH . D 4 HOH A 133 833 70 HOH HOH . D 4 HOH A 134 834 144 HOH HOH . D 4 HOH A 135 835 103 HOH HOH . D 4 HOH A 136 836 173 HOH HOH . D 4 HOH A 137 837 94 HOH HOH . D 4 HOH A 138 838 69 HOH HOH . D 4 HOH A 139 839 90 HOH HOH . D 4 HOH A 140 840 86 HOH HOH . D 4 HOH A 141 841 149 HOH HOH . D 4 HOH A 142 842 96 HOH HOH . D 4 HOH A 143 843 98 HOH HOH . D 4 HOH A 144 844 72 HOH HOH . D 4 HOH A 145 845 91 HOH HOH . D 4 HOH A 146 846 99 HOH HOH . D 4 HOH A 147 847 75 HOH HOH . D 4 HOH A 148 848 118 HOH HOH . D 4 HOH A 149 849 158 HOH HOH . D 4 HOH A 150 850 161 HOH HOH . D 4 HOH A 151 851 73 HOH HOH . D 4 HOH A 152 852 147 HOH HOH . D 4 HOH A 153 853 110 HOH HOH . D 4 HOH A 154 854 162 HOH HOH . D 4 HOH A 155 855 156 HOH HOH . D 4 HOH A 156 856 146 HOH HOH . D 4 HOH A 157 857 176 HOH HOH . D 4 HOH A 158 858 151 HOH HOH . D 4 HOH A 159 859 102 HOH HOH . D 4 HOH A 160 860 116 HOH HOH . D 4 HOH A 161 861 177 HOH HOH . D 4 HOH A 162 862 171 HOH HOH . D 4 HOH A 163 863 63 HOH HOH . D 4 HOH A 164 864 132 HOH HOH . D 4 HOH A 165 865 56 HOH HOH . D 4 HOH A 166 866 160 HOH HOH . D 4 HOH A 167 867 67 HOH HOH . D 4 HOH A 168 868 154 HOH HOH . D 4 HOH A 169 869 62 HOH HOH . D 4 HOH A 170 870 133 HOH HOH . D 4 HOH A 171 871 152 HOH HOH . D 4 HOH A 172 872 135 HOH HOH . D 4 HOH A 173 873 77 HOH HOH . D 4 HOH A 174 874 175 HOH HOH . D 4 HOH A 175 875 23 HOH HOH . D 4 HOH A 176 876 97 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 3 -26.752 7.351 -18.343 1 36.48 ? C1 RET 602 A 1 HETATM 2 C C2 RET . . . C 3 -26.16 7.816 -17.009 1 35.81 ? C2 RET 602 A 1 HETATM 3 C C3 RET . . . C 3 -24.735 8.339 -17.112 1 36.14 ? C3 RET 602 A 1 HETATM 4 C C4 RET . . . C 3 -24.571 9.428 -18.165 1 36.16 ? C4 RET 602 A 1 HETATM 5 C C5 RET . . . C 3 -25.604 9.398 -19.262 1 36.38 ? C5 RET 602 A 1 HETATM 6 C C6 RET . . . C 3 -26.422 8.349 -19.452 1 37.11 ? C6 RET 602 A 1 HETATM 7 C C7 RET . . . C 3 -27.129 8.121 -20.696 1 37.39 ? C7 RET 602 A 1 HETATM 8 C C8 RET . . . C 3 -26.542 7.838 -21.838 1 37.84 ? C8 RET 602 A 1 HETATM 9 C C9 RET . . . C 3 -27.145 7.574 -23.126 1 37.96 ? C9 RET 602 A 1 HETATM 10 C C10 RET . . . C 3 -26.375 7.006 -24.08 1 40.06 ? C10 RET 602 A 1 HETATM 11 C C11 RET . . . C 3 -26.734 6.633 -25.418 1 41.06 ? C11 RET 602 A 1 HETATM 12 C C12 RET . . . C 3 -25.787 6.247 -26.266 1 41.24 ? C12 RET 602 A 1 HETATM 13 C C13 RET . . . C 3 -25.928 5.808 -27.636 1 43.97 ? C13 RET 602 A 1 HETATM 14 C C14 RET . . . C 3 -25.111 4.823 -28.08 1 44.24 ? C14 RET 602 A 1 HETATM 15 C C15 RET . . . C 3 -25.062 4.228 -29.388 1 47.31 ? C15 RET 602 A 1 HETATM 16 O O1 RET . . . C 3 -24.288 3.342 -29.691 1 47.25 ? O1 RET 602 A 1 HETATM 17 C C16 RET . . . C 3 -26.176 5.975 -18.694 1 36.3 ? C16 RET 602 A 1 HETATM 18 C C17 RET . . . C 3 -28.27 7.214 -18.187 1 36.61 ? C17 RET 602 A 1 HETATM 19 C C18 RET . . . C 3 -25.449 10.536 -20.235 1 36.57 ? C18 RET 602 A 1 HETATM 20 C C19 RET . . . C 3 -28.592 7.926 -23.324 1 39.42 ? C19 RET 602 A 1 HETATM 21 C C20 RET . . . C 3 -26.968 6.474 -28.494 1 44.2 ? C20 RET 602 A 1 # _model_server_stats.io_time_ms 48 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 21 #