data_3W5D # _model_server_result.job_id rf4MYnNNB1k5VlRSaG-FOg _model_server_result.datetime_utc '2024-11-06 14:32:14' _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 3w5d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1001}' # _entry.id 3W5D # _exptl.entry_id 3W5D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 3W5D _cell.length_a 71.248 _cell.length_b 71.248 _cell.length_c 587.086 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3W5D _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _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 # _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 disulf ? disulf1 A SG CYS 877 A CYS 876 1_555 A SG CYS 889 A CYS 888 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A C ACE 1 A ACE 0 1_555 A N MET 2 A MET 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.308 ? metalc ? metalc1 A OE1 GLU 733 A GLU 732 1_555 B NA NA . A NA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc2 B NA NA . A NA 1001 1_555 J O HOH . A HOH 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc3 B NA NA . A NA 1001 1_555 J O HOH . A HOH 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc4 A O ALA 715 A ALA 714 1_555 B NA NA . A NA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc5 A O LEU 712 A LEU 711 1_555 B NA NA . A NA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? metalc ? metalc6 A OE2 GLU 733 A GLU 732 1_555 B NA NA . A NA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.809 ? metalc ? metalc7 A O LYS 713 A LYS 712 1_555 B NA NA . A NA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.13 ? # _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 3W5D _atom_sites.fract_transf_matrix[1][1] 0.014035 _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] 0.014035 _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] 0.001703 _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 NA A 1 1001 1000 NA NA . C 3 PTY A 1 1002 1011 PTY PTY . D 3 PTY A 1 1003 1012 PTY PTY . E 3 PTY A 1 1004 1013 PTY PTY . F 3 PTY A 1 1005 1014 PTY PTY . G 3 PTY A 1 1006 1015 PTY PTY . H 4 SO4 A 1 1007 6920 SO4 SO4 . I 4 SO4 A 1 1008 6921 SO4 SO4 . J 5 HOH A 1 1101 2020 HOH HOH . J 5 HOH A 2 1102 2021 HOH HOH . J 5 HOH A 3 1103 3001 HOH HOH . J 5 HOH A 4 1104 3002 HOH HOH . J 5 HOH A 5 1105 3003 HOH HOH . J 5 HOH A 6 1106 3004 HOH HOH . J 5 HOH A 7 1107 3005 HOH HOH . J 5 HOH A 8 1108 3006 HOH HOH . J 5 HOH A 9 1109 3012 HOH HOH . J 5 HOH A 10 1110 3014 HOH HOH . J 5 HOH A 11 1111 3023 HOH HOH . J 5 HOH A 12 1112 3024 HOH HOH . J 5 HOH A 13 1113 3025 HOH HOH . J 5 HOH A 14 1114 3028 HOH HOH . J 5 HOH A 15 1115 3029 HOH HOH . J 5 HOH A 16 1116 3032 HOH HOH . J 5 HOH A 17 1117 3034 HOH HOH . J 5 HOH A 18 1118 3036 HOH HOH . J 5 HOH A 19 1119 3038 HOH HOH . J 5 HOH A 20 1120 3039 HOH HOH . J 5 HOH A 21 1121 3040 HOH HOH . J 5 HOH A 22 1122 3041 HOH HOH . J 5 HOH A 23 1123 3042 HOH HOH . J 5 HOH A 24 1124 3043 HOH HOH . J 5 HOH A 25 1125 3044 HOH HOH . J 5 HOH A 26 1126 3045 HOH HOH . J 5 HOH A 27 1127 3046 HOH HOH . J 5 HOH A 28 1128 3047 HOH HOH . J 5 HOH A 29 1129 3048 HOH HOH . J 5 HOH A 30 1130 3049 HOH HOH . J 5 HOH A 31 1131 3050 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 B _atom_site.label_entity_id 2 _atom_site.Cartn_x 41.022 _atom_site.Cartn_y -10.042 _atom_site.Cartn_z 109.019 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 47.17 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 1001 _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 8 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 349 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 1 #