data_5M82 # _model_server_result.job_id pOVOd2HZX8osW8hbGekfVA _model_server_result.datetime_utc '2024-11-24 12:47:22' _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 5m82 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":703}' # _entry.id 5M82 # _exptl.entry_id 5M82 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM 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 120 _cell.entry_id 5M82 _cell.length_a 75.286 _cell.length_b 75.286 _cell.length_c 71.38 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5M82 _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 covale ? covale1 A SG CYS 138 A CYS 528 1_555 B CAC CYC . A CYC 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.734 ? metalc ? metalc1 A OG1 THR 136 A THR 526 1_555 F NA NA . A NA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.08 ? metalc ? metalc2 A OG1 THR 153 A THR 543 1_555 D NA NA . A NA 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.914 ? metalc ? metalc3 A OH TYR 169 A TYR 559 1_555 D NA NA . A NA 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc4 B OB CYC . A CYC 701 1_555 E NA NA . A NA 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.476 ? metalc ? metalc5 D NA NA . A NA 703 1_555 G O HOH . A HOH 823 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.438 ? metalc ? metalc6 F NA NA . A NA 705 1_555 G O HOH . A HOH 854 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.795 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5M82 _atom_sites.fract_transf_matrix[1][1] 0.013283 _atom_sites.fract_transf_matrix[1][2] 0.007669 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015338 _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] 0.01401 _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 CYC A 1 701 1 CYC CYC . C 3 3CX A 1 702 1 3CX 3CX . D 4 NA A 1 703 1 NA NA . E 4 NA A 1 704 2 NA NA . F 4 NA A 1 705 3 NA NA . G 5 HOH A 1 801 60 HOH HOH . G 5 HOH A 2 802 56 HOH HOH . G 5 HOH A 3 803 50 HOH HOH . G 5 HOH A 4 804 6 HOH HOH . G 5 HOH A 5 805 58 HOH HOH . G 5 HOH A 6 806 48 HOH HOH . G 5 HOH A 7 807 64 HOH HOH . G 5 HOH A 8 808 41 HOH HOH . G 5 HOH A 9 809 29 HOH HOH . G 5 HOH A 10 810 11 HOH HOH . G 5 HOH A 11 811 12 HOH HOH . G 5 HOH A 12 812 57 HOH HOH . G 5 HOH A 13 813 17 HOH HOH . G 5 HOH A 14 814 9 HOH HOH . G 5 HOH A 15 815 45 HOH HOH . G 5 HOH A 16 816 2 HOH HOH . G 5 HOH A 17 817 1 HOH HOH . G 5 HOH A 18 818 26 HOH HOH . G 5 HOH A 19 819 51 HOH HOH . G 5 HOH A 20 820 38 HOH HOH . G 5 HOH A 21 821 14 HOH HOH . G 5 HOH A 22 822 24 HOH HOH . G 5 HOH A 23 823 21 HOH HOH . G 5 HOH A 24 824 34 HOH HOH . G 5 HOH A 25 825 43 HOH HOH . G 5 HOH A 26 826 8 HOH HOH . G 5 HOH A 27 827 7 HOH HOH . G 5 HOH A 28 828 31 HOH HOH . G 5 HOH A 29 829 46 HOH HOH . G 5 HOH A 30 830 10 HOH HOH . G 5 HOH A 31 831 25 HOH HOH . G 5 HOH A 32 832 4 HOH HOH . G 5 HOH A 33 833 52 HOH HOH . G 5 HOH A 34 834 67 HOH HOH . G 5 HOH A 35 835 54 HOH HOH . G 5 HOH A 36 836 22 HOH HOH . G 5 HOH A 37 837 44 HOH HOH . G 5 HOH A 38 838 5 HOH HOH . G 5 HOH A 39 839 37 HOH HOH . G 5 HOH A 40 840 33 HOH HOH . G 5 HOH A 41 841 18 HOH HOH . G 5 HOH A 42 842 62 HOH HOH . G 5 HOH A 43 843 32 HOH HOH . G 5 HOH A 44 844 16 HOH HOH . G 5 HOH A 45 845 61 HOH HOH . G 5 HOH A 46 846 19 HOH HOH . G 5 HOH A 47 847 27 HOH HOH . G 5 HOH A 48 848 47 HOH HOH . G 5 HOH A 49 849 30 HOH HOH . G 5 HOH A 50 850 49 HOH HOH . G 5 HOH A 51 851 20 HOH HOH . G 5 HOH A 52 852 35 HOH HOH . G 5 HOH A 53 853 3 HOH HOH . G 5 HOH A 54 854 66 HOH HOH . G 5 HOH A 55 855 53 HOH HOH . G 5 HOH A 56 856 13 HOH HOH . G 5 HOH A 57 857 28 HOH HOH . G 5 HOH A 58 858 59 HOH HOH . G 5 HOH A 59 859 36 HOH HOH . G 5 HOH A 60 860 63 HOH HOH . G 5 HOH A 61 861 55 HOH HOH . G 5 HOH A 62 862 23 HOH HOH . G 5 HOH A 63 863 15 HOH HOH . G 5 HOH A 64 864 39 HOH HOH . G 5 HOH A 65 865 65 HOH HOH . G 5 HOH A 66 866 40 HOH HOH . G 5 HOH A 67 867 42 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 4 _atom_site.Cartn_x 87.728 _atom_site.Cartn_y -23.323 _atom_site.Cartn_z -3.61 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 40.34 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 703 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 338 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #