data_4XTO # _model_server_result.job_id gViTDYypsU58xAdHJKsBlw _model_server_result.datetime_utc '2024-11-27 09:00:20' _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 4xto # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":301}' # _entry.id 4XTO # _exptl.entry_id 4XTO _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 5 _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 4XTO _cell.length_a 127.1 _cell.length_b 238.98 _cell.length_c 132.48 _cell.Z_PDB 40 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XTO _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y _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 ? 2 F N N ? 2 I N N ? 2 M N N ? 2 P N N ? 2 S 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 C SER 254 A SER 254 1_555 A N LYR 255 A LYR 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale2 A C LYR 255 A LYR 255 1_555 A N VAL 256 A VAL 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 B C SER 254 B SER 254 1_555 B N LYR 255 B LYR 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 B C LYR 255 B LYR 255 1_555 B N VAL 256 B VAL 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale5 C C SER 254 C SER 254 1_555 C N LYR 255 C LYR 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale6 C C LYR 255 C LYR 255 1_555 C N VAL 256 C VAL 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale7 D C SER 254 D SER 254 1_555 D N LYR 255 D LYR 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale8 D C LYR 255 D LYR 255 1_555 D N VAL 256 D VAL 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale9 E C SER 254 E SER 254 1_555 E N LYR 255 E LYR 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale10 E C LYR 255 E LYR 255 1_555 E N VAL 256 E VAL 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 A OH TYR 25 A TYR 25 1_555 F NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.537 ? metalc ? metalc2 A O THR 83 A THR 83 1_555 F NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? metalc ? metalc3 A O PHE 86 A PHE 86 1_555 F NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc4 A OD1 ASP 102 A ASP 102 1_555 S NA NA . E NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.61 ? metalc ? metalc5 F NA NA . A NA 301 1_555 B OD1 ASP 102 B ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.6 ? metalc ? metalc6 F NA NA . A NA 301 1_555 B OD2 ASP 102 B ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.752 ? metalc ? metalc7 B OH TYR 25 B TYR 25 1_555 I NA NA . B NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.663 ? metalc ? metalc8 B O THR 83 B THR 83 1_555 I NA NA . B NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? metalc ? metalc9 B O PHE 86 B PHE 86 1_555 I NA NA . B NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc10 I NA NA . B NA 301 1_555 C OD1 ASP 102 C ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.796 ? metalc ? metalc11 I NA NA . B NA 301 1_555 C OD2 ASP 102 C ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.192 ? metalc ? metalc12 C OH TYR 25 C TYR 25 1_555 M NA NA . C NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.135 ? metalc ? metalc13 C O THR 83 C THR 83 1_555 M NA NA . C NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc14 C O PHE 86 C PHE 86 1_555 M NA NA . C NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.525 ? metalc ? metalc15 M NA NA . C NA 301 1_555 D OD1 ASP 102 D ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc16 M NA NA . C NA 301 1_555 D OD2 ASP 102 D ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.19 ? metalc ? metalc17 D OH TYR 25 D TYR 25 1_555 P NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.669 ? metalc ? metalc18 D O THR 83 D THR 83 1_555 P NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? metalc ? metalc19 D O PHE 86 D PHE 86 1_555 P NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.448 ? metalc ? metalc20 P NA NA . D NA 301 1_555 E OD1 ASP 102 E ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc21 P NA NA . D NA 301 1_555 E OD2 ASP 102 E ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.787 ? metalc ? metalc22 E OH TYR 25 E TYR 25 1_555 S NA NA . E NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.986 ? metalc ? metalc23 E O THR 83 E THR 83 1_555 S NA NA . E NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? metalc ? metalc24 E O PHE 86 E PHE 86 1_555 S NA NA . E NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? # _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 4XTO _atom_sites.fract_transf_matrix[1][1] 0.007868 _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] 0.004184 _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] 0.007548 _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 F 2 NA A 1 301 1 NA NA . G 3 LFA A 1 302 1 LFA LFA . H 3 LFA A 1 303 2 LFA LFA . I 2 NA B 1 301 2 NA NA . J 3 LFA B 1 302 3 LFA LFA . K 3 LFA B 1 303 7 LFA LFA . L 3 LFA B 1 304 8 LFA LFA . M 2 NA C 1 301 3 NA NA . N 3 LFA C 1 302 4 LFA LFA . O 3 LFA C 1 303 9 LFA LFA . P 2 NA D 1 301 4 NA NA . Q 3 LFA D 1 302 5 LFA LFA . R 3 LFA D 1 303 10 LFA LFA . S 2 NA E 1 301 5 NA NA . T 3 LFA E 1 302 6 LFA LFA . U 4 HOH A 1 401 3 HOH HOH . U 4 HOH A 2 402 10 HOH HOH . U 4 HOH A 3 403 11 HOH HOH . V 4 HOH B 1 401 2 HOH HOH . V 4 HOH B 2 402 4 HOH HOH . V 4 HOH B 3 403 12 HOH HOH . W 4 HOH C 1 401 1 HOH HOH . W 4 HOH C 2 402 5 HOH HOH . W 4 HOH C 3 403 13 HOH HOH . X 4 HOH D 1 401 6 HOH HOH . X 4 HOH D 2 402 7 HOH HOH . X 4 HOH D 3 403 14 HOH HOH . Y 4 HOH E 1 401 8 HOH HOH . Y 4 HOH E 2 402 9 HOH HOH . Y 4 HOH E 3 403 15 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 S _atom_site.label_entity_id 2 _atom_site.Cartn_x -41.753 _atom_site.Cartn_y -13.1 _atom_site.Cartn_z 6.969 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 81.56 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 301 _atom_site.auth_asym_id E _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 1 #