data_4PL0 # _model_server_result.job_id 1NvXVWCSOMuHyA6Zhop0-Q _model_server_result.datetime_utc '2024-11-24 03:23:05' _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 4pl0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":603}' # _entry.id 4PL0 # _exptl.entry_id 4PL0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 306.395 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'nonyl beta-D-glucopyranoside' _entity.pdbx_number_of_molecules 2 _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 4PL0 _cell.length_a 80.83 _cell.length_b 107.92 _cell.length_c 232.96 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PL0 _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 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,E,F,G,H _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 E N N ? 4 H 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 OG SER 385 A SER 385 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.925 ? metalc ? metalc2 A OE1 GLN 426 A GLN 426 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.965 ? metalc ? metalc3 C O1G ANP . A ANP 601 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.463 ? metalc ? metalc4 C O1B ANP . A ANP 601 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.904 ? metalc ? metalc5 B OG SER 385 B SER 385 1_555 G MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.926 ? metalc ? metalc6 B OE1 GLN 426 B GLN 426 1_555 G MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc7 F O1G ANP . B ANP 601 1_555 G MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.301 ? metalc ? metalc8 F O1B ANP . B ANP 601 1_555 G MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.512 ? # _chem_comp.formula 'C15 H30 O6' _chem_comp.formula_weight 306.395 _chem_comp.id BNG _chem_comp.mon_nstd_flag n _chem_comp.name 'nonyl beta-D-glucopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms 'Beta-NONYLGLUCOSIDE;nonyl beta-D-glucoside;nonyl D-glucoside;nonyl glucoside' # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 C2 BNG sing 120 n n C1 O1 BNG sing 121 n n C1 O5 BNG sing 122 n n C1 H1 BNG sing 123 n n C2 C3 BNG sing 124 n n C2 O2 BNG sing 125 n n C2 H2 BNG sing 126 n n C3 C4 BNG sing 127 n n C3 O3 BNG sing 128 n n C3 H3 BNG sing 129 n n C4 C5 BNG sing 130 n n C4 O4 BNG sing 131 n n C4 H4 BNG sing 132 n n C5 C6 BNG sing 133 n n C5 O5 BNG sing 134 n n C5 H5 BNG sing 135 n n C6 O6 BNG sing 136 n n C6 H61 BNG sing 137 n n C6 H62 BNG sing 138 n n C1' C2' BNG sing 139 n n C1' O1 BNG sing 140 n n C1' "H1'1" BNG sing 141 n n C1' "H1'2" BNG sing 142 n n C2' C3' BNG sing 143 n n C2' "H2'1" BNG sing 144 n n C2' "H2'2" BNG sing 145 n n C3' C4' BNG sing 146 n n C3' "H3'1" BNG sing 147 n n C3' "H3'2" BNG sing 148 n n C4' C5' BNG sing 149 n n C4' "H4'1" BNG sing 150 n n C4' "H4'2" BNG sing 151 n n C5' C6' BNG sing 152 n n C5' "H5'1" BNG sing 153 n n C5' "H5'2" BNG sing 154 n n C6' C7' BNG sing 155 n n C6' "H6'1" BNG sing 156 n n C6' "H6'2" BNG sing 157 n n C7' C8' BNG sing 158 n n C7' "H7'1" BNG sing 159 n n C7' "H7'2" BNG sing 160 n n C8' C9' BNG sing 161 n n C8' "H8'1" BNG sing 162 n n C8' "H8'2" BNG sing 163 n n C9' "H9'1" BNG sing 164 n n C9' "H9'2" BNG sing 165 n n C9' "H9'3" BNG sing 166 n n O2 HO2 BNG sing 167 n n O3 HO3 BNG sing 168 n n O4 HO4 BNG sing 169 n n O6 HO6 BNG sing 170 n n # _pdbx_chem_comp_identifier.comp_id BNG _pdbx_chem_comp_identifier.identifier b-nonylglucoside _pdbx_chem_comp_identifier.type 'IUPAC CARBOHYDRATE SYMBOL' _pdbx_chem_comp_identifier.program PDB-CARE _pdbx_chem_comp_identifier.program_version 1 # _atom_sites.entry_id 4PL0 _atom_sites.fract_transf_matrix[1][1] 0.012372 _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] 0.009266 _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] 0.004293 _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 C 2 ANP A 1 601 1 ANP ANP . D 3 MG A 1 602 1 MG MG . E 4 BNG A 1 603 1 BNG BNG . F 2 ANP B 1 601 1 ANP ANP . G 3 MG B 1 602 1 MG MG . H 4 BNG B 1 603 1 BNG BNG . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 BNG . . . E 4 -23.944 -10.614 84.273 1 126.91 ? C1 BNG 603 A 1 HETATM 2 C C2 BNG . . . E 4 -23.49 -9.811 83.056 1 128.09 ? C2 BNG 603 A 1 HETATM 3 C C3 BNG . . . E 4 -23.116 -10.739 81.899 1 129.47 ? C3 BNG 603 A 1 HETATM 4 C C4 BNG . . . E 4 -22.132 -11.813 82.357 1 129.06 ? C4 BNG 603 A 1 HETATM 5 C C5 BNG . . . E 4 -22.684 -12.542 83.584 1 128.28 ? C5 BNG 603 A 1 HETATM 6 C C6 BNG . . . E 4 -21.714 -13.538 84.178 1 127.12 ? C6 BNG 603 A 1 HETATM 7 C C1' BNG . . . E 4 -25.357 -9.917 86.039 1 119.42 ? C1' BNG 603 A 1 HETATM 8 C C2' BNG . . . E 4 -25.57 -8.801 87.022 1 114.94 ? C2' BNG 603 A 1 HETATM 9 C C3' BNG . . . E 4 -24.73 -8.931 88.273 1 110.61 ? C3' BNG 603 A 1 HETATM 10 C C4' BNG . . . E 4 -25.286 -8.186 89.486 1 106.07 ? C4' BNG 603 A 1 HETATM 11 C C5' BNG . . . E 4 -26.226 -9.001 90.382 1 100.6 ? C5' BNG 603 A 1 HETATM 12 C C6' BNG . . . E 4 -27.715 -8.867 90.072 1 95.63 ? C6' BNG 603 A 1 HETATM 13 C C7' BNG . . . E 4 -28.372 -7.614 90.645 1 92.85 ? C7' BNG 603 A 1 HETATM 14 C C8' BNG . . . E 4 -29.726 -7.841 91.309 1 93.15 ? C8' BNG 603 A 1 HETATM 15 C C9' BNG . . . E 4 -30.849 -8.318 90.389 1 93.38 ? C9' BNG 603 A 1 HETATM 16 O O1 BNG . . . E 4 -24.128 -9.728 85.341 1 123.44 ? O1 BNG 603 A 1 HETATM 17 O O2 BNG . . . E 4 -24.508 -8.892 82.661 1 126.87 ? O2 BNG 603 A 1 HETATM 18 O O3 BNG . . . E 4 -22.554 -9.987 80.826 1 129.91 ? O3 BNG 603 A 1 HETATM 19 O O4 BNG . . . E 4 -21.836 -12.717 81.291 1 127.55 ? O4 BNG 603 A 1 HETATM 20 O O5 BNG . . . E 4 -22.976 -11.592 84.624 1 127.64 ? O5 BNG 603 A 1 HETATM 21 O O6 BNG . . . E 4 -22.171 -14.01 85.438 1 125.69 ? O6 BNG 603 A 1 # _model_server_stats.io_time_ms 43 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 21 #