data_8RX9 # _model_server_result.job_id h3gvFprpndUi5CD78fHHnw _model_server_result.datetime_utc '2024-10-27 20:23:24' _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 8rx9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":704}' # _entry.id 8RX9 # _exptl.entry_id 8RX9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 173.04 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'YTTERBIUM (III) ION' _entity.pdbx_number_of_molecules 3 _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 8RX9 _cell.length_a 78.195 _cell.length_b 86.938 _cell.length_c 99.494 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8RX9 _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 PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,E,F,G,H,I,J _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N ? 4 F 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 metalc ? metalc1 A OD1 ASP 178 A ASP 175 1_555 E YB YB . A YB 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.614 ? metalc ? metalc2 A OD2 ASP 178 A ASP 175 1_555 E YB YB . A YB 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.549 ? metalc ? metalc3 A NE2 HIS 298 A HIS 295 1_555 B ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.498 ? metalc ? metalc4 A NE2 HIS 302 A HIS 299 1_555 B ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc5 A OE1 GLU 321 A GLU 318 1_555 B ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc6 A OD1 ASP 429 A ASP 426 1_555 F YB YB . A YB 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.815 ? metalc ? metalc7 A OD1 ASP 484 A ASP 481 1_555 D YB YB . A YB 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.746 ? metalc ? metalc8 A OD2 ASP 484 A ASP 481 1_555 D YB YB . A YB 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.586 ? metalc ? metalc9 A OD1 ASP 613 A ASP 610 1_555 F YB YB . A YB 705 2_454 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? metalc ? metalc10 C OXT ACT . A ACT 702 1_555 D YB YB . A YB 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc11 D YB YB . A YB 703 1_555 J O HOH . A HOH 809 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.96 ? metalc ? metalc12 E YB YB . A YB 704 1_555 J O HOH . A HOH 907 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.429 ? # _chem_comp.formula 'Yb 3' _chem_comp.formula_weight 173.04 _chem_comp.id YB _chem_comp.mon_nstd_flag . _chem_comp.name 'YTTERBIUM (III) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 8RX9 _atom_sites.fract_transf_matrix[1][1] 0.012789 _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] 0.011502 _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] 0.010051 _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 ZN A 1 701 999 ZN ZN . C 3 ACT A 1 702 1000 ACT ACT . D 4 YB A 1 703 1001 YB YB . E 4 YB A 1 704 1002 YB YB . F 4 YB A 1 705 1003 YB YB . G 5 IMD A 1 706 1004 IMD IMD . H 5 IMD A 1 707 1006 IMD IMD . I 6 A1H3U A 1 708 1 A1H3U LI1 . J 7 HOH A 1 801 18 HOH HOH . J 7 HOH A 2 802 78 HOH HOH . J 7 HOH A 3 803 62 HOH HOH . J 7 HOH A 4 804 36 HOH HOH . J 7 HOH A 5 805 56 HOH HOH . J 7 HOH A 6 806 83 HOH HOH . J 7 HOH A 7 807 120 HOH HOH . J 7 HOH A 8 808 25 HOH HOH . J 7 HOH A 9 809 5 HOH HOH . J 7 HOH A 10 810 57 HOH HOH . J 7 HOH A 11 811 26 HOH HOH . J 7 HOH A 12 812 22 HOH HOH . J 7 HOH A 13 813 109 HOH HOH . J 7 HOH A 14 814 118 HOH HOH . J 7 HOH A 15 815 112 HOH HOH . J 7 HOH A 16 816 71 HOH HOH . J 7 HOH A 17 817 24 HOH HOH . J 7 HOH A 18 818 28 HOH HOH . J 7 HOH A 19 819 49 HOH HOH . J 7 HOH A 20 820 43 HOH HOH . J 7 HOH A 21 821 124 HOH HOH . J 7 HOH A 22 822 6 HOH HOH . J 7 HOH A 23 823 14 HOH HOH . J 7 HOH A 24 824 45 HOH HOH . J 7 HOH A 25 825 23 HOH HOH . J 7 HOH A 26 826 11 HOH HOH . J 7 HOH A 27 827 34 HOH HOH . J 7 HOH A 28 828 33 HOH HOH . J 7 HOH A 29 829 48 HOH HOH . J 7 HOH A 30 830 58 HOH HOH . J 7 HOH A 31 831 72 HOH HOH . J 7 HOH A 32 832 70 HOH HOH . J 7 HOH A 33 833 74 HOH HOH . J 7 HOH A 34 834 59 HOH HOH . J 7 HOH A 35 835 17 HOH HOH . J 7 HOH A 36 836 15 HOH HOH . J 7 HOH A 37 837 21 HOH HOH . J 7 HOH A 38 838 81 HOH HOH . J 7 HOH A 39 839 1 HOH HOH . J 7 HOH A 40 840 37 HOH HOH . J 7 HOH A 41 841 63 HOH HOH . J 7 HOH A 42 842 60 HOH HOH . J 7 HOH A 43 843 53 HOH HOH . J 7 HOH A 44 844 29 HOH HOH . J 7 HOH A 45 845 97 HOH HOH . J 7 HOH A 46 846 31 HOH HOH . J 7 HOH A 47 847 123 HOH HOH . J 7 HOH A 48 848 75 HOH HOH . J 7 HOH A 49 849 104 HOH HOH . J 7 HOH A 50 850 87 HOH HOH . J 7 HOH A 51 851 30 HOH HOH . J 7 HOH A 52 852 111 HOH HOH . J 7 HOH A 53 853 126 HOH HOH . J 7 HOH A 54 854 9 HOH HOH . J 7 HOH A 55 855 27 HOH HOH . J 7 HOH A 56 856 41 HOH HOH . J 7 HOH A 57 857 67 HOH HOH . J 7 HOH A 58 858 12 HOH HOH . J 7 HOH A 59 859 69 HOH HOH . J 7 HOH A 60 860 125 HOH HOH . J 7 HOH A 61 861 95 HOH HOH . J 7 HOH A 62 862 110 HOH HOH . J 7 HOH A 63 863 82 HOH HOH . J 7 HOH A 64 864 92 HOH HOH . J 7 HOH A 65 865 46 HOH HOH . J 7 HOH A 66 866 107 HOH HOH . J 7 HOH A 67 867 64 HOH HOH . J 7 HOH A 68 868 2 HOH HOH . J 7 HOH A 69 869 32 HOH HOH . J 7 HOH A 70 870 73 HOH HOH . J 7 HOH A 71 871 80 HOH HOH . J 7 HOH A 72 872 113 HOH HOH . J 7 HOH A 73 873 40 HOH HOH . J 7 HOH A 74 874 117 HOH HOH . J 7 HOH A 75 875 76 HOH HOH . J 7 HOH A 76 876 122 HOH HOH . J 7 HOH A 77 877 100 HOH HOH . J 7 HOH A 78 878 93 HOH HOH . J 7 HOH A 79 879 3 HOH HOH . J 7 HOH A 80 880 20 HOH HOH . J 7 HOH A 81 881 54 HOH HOH . J 7 HOH A 82 882 85 HOH HOH . J 7 HOH A 83 883 16 HOH HOH . J 7 HOH A 84 884 50 HOH HOH . J 7 HOH A 85 885 8 HOH HOH . J 7 HOH A 86 886 55 HOH HOH . J 7 HOH A 87 887 115 HOH HOH . J 7 HOH A 88 888 86 HOH HOH . J 7 HOH A 89 889 96 HOH HOH . J 7 HOH A 90 890 61 HOH HOH . J 7 HOH A 91 891 51 HOH HOH . J 7 HOH A 92 892 44 HOH HOH . J 7 HOH A 93 893 7 HOH HOH . J 7 HOH A 94 894 65 HOH HOH . J 7 HOH A 95 895 105 HOH HOH . J 7 HOH A 96 896 4 HOH HOH . J 7 HOH A 97 897 103 HOH HOH . J 7 HOH A 98 898 99 HOH HOH . J 7 HOH A 99 899 39 HOH HOH . J 7 HOH A 100 900 13 HOH HOH . J 7 HOH A 101 901 79 HOH HOH . J 7 HOH A 102 902 101 HOH HOH . J 7 HOH A 103 903 91 HOH HOH . J 7 HOH A 104 904 66 HOH HOH . J 7 HOH A 105 905 19 HOH HOH . J 7 HOH A 106 906 106 HOH HOH . J 7 HOH A 107 907 121 HOH HOH . J 7 HOH A 108 908 38 HOH HOH . J 7 HOH A 109 909 88 HOH HOH . J 7 HOH A 110 910 10 HOH HOH . J 7 HOH A 111 911 108 HOH HOH . J 7 HOH A 112 912 47 HOH HOH . J 7 HOH A 113 913 114 HOH HOH . J 7 HOH A 114 914 68 HOH HOH . J 7 HOH A 115 915 127 HOH HOH . J 7 HOH A 116 916 128 HOH HOH . J 7 HOH A 117 917 94 HOH HOH . J 7 HOH A 118 918 119 HOH HOH . J 7 HOH A 119 919 52 HOH HOH . J 7 HOH A 120 920 102 HOH HOH . J 7 HOH A 121 921 98 HOH HOH . J 7 HOH A 122 922 35 HOH HOH . J 7 HOH A 123 923 90 HOH HOH . J 7 HOH A 124 924 89 HOH HOH . J 7 HOH A 125 925 42 HOH HOH . J 7 HOH A 126 926 84 HOH HOH . J 7 HOH A 127 927 116 HOH HOH . J 7 HOH A 128 928 77 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol YB _atom_site.label_atom_id YB _atom_site.label_comp_id YB _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id E _atom_site.label_entity_id 4 _atom_site.Cartn_x 17.625 _atom_site.Cartn_y -16.693 _atom_site.Cartn_z -2.75 _atom_site.occupancy 0.39 _atom_site.B_iso_or_equiv 85.15 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id YB _atom_site.auth_comp_id YB _atom_site.auth_seq_id 704 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 251 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #