data_3BNT # _model_server_result.job_id LfYd8oc_pBEq0ra-Usb0AA _model_server_result.datetime_utc '2024-11-22 02:33:30' _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 3bnt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":23}' # _entry.id 3BNT # _exptl.entry_id 3BNT _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 120 _cell.entry_id 3BNT _cell.length_a 74.865 _cell.length_b 74.865 _cell.length_c 22.537 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3BNT _symmetry.cell_setting ? _symmetry.Int_Tables_number 172 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 64' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 # 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' 4_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 37.4325 64.834992 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 covale ? covale1 A O3' C 9 A C 9 1_555 A P 5BU 10 A 5BU 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.607 ? covale ? covale2 A O3' 5BU 10 A 5BU 10 1_555 A P C 11 A C 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.606 ? metalc ? metalc1 A O3' C 22 A C 22 1_555 B NA NA . A NA 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.603 ? metalc ? metalc2 A O2' C 22 A C 22 1_555 B NA NA . A NA 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.883 ? hydrog WATSON-CRICK hydrog1 A N1 G 2 A G 2 1_555 A N3 C 22 A C 22 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 G 2 A G 2 1_555 A O2 C 22 A C 22 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 G 2 A G 2 1_555 A N4 C 22 A C 22 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 C 3 A C 3 1_555 A N1 G 21 A G 21 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N4 C 3 A C 3 1_555 A O6 G 21 A G 21 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O2 C 3 A C 3 1_555 A N2 G 21 A G 21 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N1 G 4 A G 4 1_555 A N3 C 20 A C 20 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N2 G 4 A G 4 1_555 A O2 C 20 A C 20 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O6 G 4 A G 4 1_555 A N4 C 20 A C 20 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_16_PAIR hydrog10 A N3 U 5 A U 5 1_555 A O4 U 19 A U 19 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_16_PAIR hydrog11 A O2 U 5 A U 5 1_555 A N3 U 19 A U 19 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N3 C 6 A C 6 1_555 A N1 G 18 A G 18 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N4 C 6 A C 6 1_555 A O6 G 18 A G 18 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A O2 C 6 A C 6 1_555 A N2 G 18 A G 18 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-A MISPAIR' hydrog15 A N1 A 7 A A 7 1_555 A N6 A 17 A A 17 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'C-C MISPAIR' hydrog16 A N4 C 8 A C 8 1_555 A O2 C 15 A C 15 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N3 C 9 A C 9 1_555 A N1 G 14 A G 14 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N4 C 9 A C 9 1_555 A O6 G 14 A G 14 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O2 C 9 A C 9 1_555 A N2 G 14 A G 14 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N3 5BU 10 A 5BU 10 1_555 A N1 A 13 A A 13 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A O4 5BU 10 A 5BU 10 1_555 A N6 A 13 A A 13 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N3 C 11 A C 11 1_555 A N1 G 12 A G 12 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N4 C 11 A C 11 1_555 A O6 G 12 A G 12 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A O2 C 11 A C 11 1_555 A N2 G 12 A G 12 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N1 G 12 A G 12 1_555 A N3 C 11 A C 11 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A N2 G 12 A G 12 1_555 A O2 C 11 A C 11 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A O6 G 12 A G 12 1_555 A N4 C 11 A C 11 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A N1 A 13 A A 13 1_555 A N3 5BU 10 A 5BU 10 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 A N6 A 13 A A 13 1_555 A O4 5BU 10 A 5BU 10 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 A N1 G 14 A G 14 1_555 A N3 C 9 A C 9 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 A N2 G 14 A G 14 1_555 A O2 C 9 A C 9 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 A O6 G 14 A G 14 1_555 A N4 C 9 A C 9 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'C-C MISPAIR' hydrog33 A O2 C 15 A C 15 1_555 A N4 C 8 A C 8 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-A MISPAIR' hydrog34 A N6 A 17 A A 17 1_555 A N1 A 7 A A 7 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog35 A N1 G 18 A G 18 1_555 A N3 C 6 A C 6 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog36 A N2 G 18 A G 18 1_555 A O2 C 6 A C 6 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog37 A O6 G 18 A G 18 1_555 A N4 C 6 A C 6 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_16_PAIR hydrog38 A N3 U 19 A U 19 1_555 A O2 U 5 A U 5 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_16_PAIR hydrog39 A O4 U 19 A U 19 1_555 A N3 U 5 A U 5 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog40 A N3 C 20 A C 20 1_555 A N1 G 4 A G 4 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog41 A N4 C 20 A C 20 1_555 A O6 G 4 A G 4 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog42 A O2 C 20 A C 20 1_555 A N2 G 4 A G 4 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog43 A N1 G 21 A G 21 1_555 A N3 C 3 A C 3 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog44 A N2 G 21 A G 21 1_555 A O2 C 3 A C 3 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog45 A O6 G 21 A G 21 1_555 A N4 C 3 A C 3 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog46 A N3 C 22 A C 22 1_555 A N1 G 2 A G 2 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog47 A N4 C 22 A C 22 1_555 A O6 G 2 A G 2 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog48 A O2 C 22 A C 22 1_555 A N2 G 2 A G 2 4_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 3BNT _atom_sites.fract_transf_matrix[1][1] 0.013357 _atom_sites.fract_transf_matrix[1][2] 0.007712 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015424 _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] 0.044371 _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 23 1 NA NA . C 3 NCO A 1 24 1 NCO NCO . D 4 HOH A 1 25 1 HOH HOH . D 4 HOH A 2 26 2 HOH HOH . D 4 HOH A 3 27 3 HOH HOH . D 4 HOH A 4 28 4 HOH HOH . D 4 HOH A 5 29 5 HOH HOH . D 4 HOH A 6 30 6 HOH HOH . D 4 HOH A 7 31 7 HOH HOH . D 4 HOH A 8 32 8 HOH HOH . D 4 HOH A 9 33 9 HOH HOH . D 4 HOH A 10 34 10 HOH HOH . D 4 HOH A 11 35 11 HOH HOH . D 4 HOH A 12 36 12 HOH HOH . D 4 HOH A 13 37 13 HOH HOH . D 4 HOH A 14 38 14 HOH HOH . D 4 HOH A 15 39 15 HOH HOH . D 4 HOH A 16 40 16 HOH HOH . D 4 HOH A 17 41 17 HOH HOH . D 4 HOH A 18 42 18 HOH HOH . D 4 HOH A 19 43 19 HOH HOH . D 4 HOH A 20 44 20 HOH HOH . D 4 HOH A 21 45 21 HOH HOH . D 4 HOH A 22 46 22 HOH HOH . D 4 HOH A 23 47 23 HOH HOH . D 4 HOH A 24 48 24 HOH HOH . D 4 HOH A 25 49 25 HOH HOH . D 4 HOH A 26 50 26 HOH HOH . D 4 HOH A 27 51 27 HOH HOH . D 4 HOH A 28 52 28 HOH HOH . D 4 HOH A 29 53 29 HOH HOH . D 4 HOH A 30 54 30 HOH HOH . D 4 HOH A 31 55 31 HOH HOH . D 4 HOH A 32 56 32 HOH HOH . D 4 HOH A 33 57 33 HOH HOH . D 4 HOH A 34 58 34 HOH HOH . D 4 HOH A 35 59 35 HOH HOH . D 4 HOH A 36 60 36 HOH HOH . D 4 HOH A 37 61 37 HOH HOH . D 4 HOH A 38 62 38 HOH HOH . D 4 HOH A 39 63 39 HOH HOH . D 4 HOH A 40 64 40 HOH HOH . D 4 HOH A 41 65 41 HOH HOH . D 4 HOH A 42 66 42 HOH HOH . D 4 HOH A 43 67 43 HOH HOH . D 4 HOH A 44 68 44 HOH HOH . D 4 HOH A 45 69 45 HOH HOH . D 4 HOH A 46 70 46 HOH HOH . D 4 HOH A 47 71 47 HOH HOH . D 4 HOH A 48 72 48 HOH HOH . D 4 HOH A 49 73 49 HOH HOH . D 4 HOH A 50 74 50 HOH HOH . D 4 HOH A 51 75 51 HOH HOH . D 4 HOH A 52 76 52 HOH HOH . D 4 HOH A 53 77 53 HOH HOH . D 4 HOH A 54 78 54 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 48.966 _atom_site.Cartn_y 40.978 _atom_site.Cartn_z 6.383 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 26.27 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 23 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 44 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 352 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 1 #