data_6C9W # _model_server_result.job_id 5bnBnJSq-iEz5qniODwuHw _model_server_result.datetime_utc '2024-12-11 22:29:57' _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 6c9w # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 6C9W # _exptl.entry_id 6C9W _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 306.395 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'nonyl beta-D-glucopyranoside' _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 6C9W _cell.length_a 153.55 _cell.length_b 153.55 _cell.length_c 193.68 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6C9W _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 # _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 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 21 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 22 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 95 _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 96 _struct_conn.ptnr2_symmetry 1_555 _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 2.033 _struct_conn.pdbx_value_order ? # _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 107 n n C1 O1 BNG sing 108 n n C1 O5 BNG sing 109 n n C1 H1 BNG sing 110 n n C2 C3 BNG sing 111 n n C2 O2 BNG sing 112 n n C2 H2 BNG sing 113 n n C3 C4 BNG sing 114 n n C3 O3 BNG sing 115 n n C3 H3 BNG sing 116 n n C4 C5 BNG sing 117 n n C4 O4 BNG sing 118 n n C4 H4 BNG sing 119 n n C5 C6 BNG sing 120 n n C5 O5 BNG sing 121 n n C5 H5 BNG sing 122 n n C6 O6 BNG sing 123 n n C6 H61 BNG sing 124 n n C6 H62 BNG sing 125 n n C1' C2' BNG sing 126 n n C1' O1 BNG sing 127 n n C1' "H1'1" BNG sing 128 n n C1' "H1'2" BNG sing 129 n n C2' C3' BNG sing 130 n n C2' "H2'1" BNG sing 131 n n C2' "H2'2" BNG sing 132 n n C3' C4' BNG sing 133 n n C3' "H3'1" BNG sing 134 n n C3' "H3'2" BNG sing 135 n n C4' C5' BNG sing 136 n n C4' "H4'1" BNG sing 137 n n C4' "H4'2" BNG sing 138 n n C5' C6' BNG sing 139 n n C5' "H5'1" BNG sing 140 n n C5' "H5'2" BNG sing 141 n n C6' C7' BNG sing 142 n n C6' "H6'1" BNG sing 143 n n C6' "H6'2" BNG sing 144 n n C7' C8' BNG sing 145 n n C7' "H7'1" BNG sing 146 n n C7' "H7'2" BNG sing 147 n n C8' C9' BNG sing 148 n n C8' "H8'1" BNG sing 149 n n C8' "H8'2" BNG sing 150 n n C9' "H9'1" BNG sing 151 n n C9' "H9'2" BNG sing 152 n n C9' "H9'3" BNG sing 153 n n O2 HO2 BNG sing 154 n n O3 HO3 BNG sing 155 n n O4 HO4 BNG sing 156 n n O6 HO6 BNG sing 157 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 6C9W _atom_sites.fract_transf_matrix[1][1] 0.006513 _atom_sites.fract_transf_matrix[1][2] 0.00376 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00752 _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] 0.005163 _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 3 9PG A 1 501 501 9PG 9PG . D 4 BNG A 1 502 502 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 . . . D 4 -42.1 -48.621 -22.195 1 134.85 ? C1 BNG 502 A 1 HETATM 2 C C2 BNG . . . D 4 -42.377 -47.134 -22.343 1 132.89 ? C2 BNG 502 A 1 HETATM 3 C C3 BNG . . . D 4 -42.276 -46.423 -21.002 1 147.5 ? C3 BNG 502 A 1 HETATM 4 C C4 BNG . . . D 4 -43.016 -47.161 -19.889 1 155.91 ? C4 BNG 502 A 1 HETATM 5 C C5 BNG . . . D 4 -42.763 -48.669 -19.921 1 137.45 ? C5 BNG 502 A 1 HETATM 6 C C6 BNG . . . D 4 -43.659 -49.424 -18.942 1 150.2 ? C6 BNG 502 A 1 HETATM 7 C C1' BNG . . . D 4 -41.981 -50.633 -23.446 1 133.67 ? C1' BNG 502 A 1 HETATM 8 C C2' BNG . . . D 4 -41.009 -50.947 -24.577 1 121.4 ? C2' BNG 502 A 1 HETATM 9 C C3' BNG . . . D 4 -41.333 -52.264 -25.275 1 110.04 ? C3' BNG 502 A 1 HETATM 10 C C4' BNG . . . D 4 -40.073 -53.067 -25.574 1 109.27 ? C4' BNG 502 A 1 HETATM 11 C C5' BNG . . . D 4 -40.213 -53.793 -26.905 1 102.71 ? C5' BNG 502 A 1 HETATM 12 C C6' BNG . . . D 4 -39.052 -54.753 -27.129 1 90.58 ? C6' BNG 502 A 1 HETATM 13 C C7' BNG . . . D 4 -39.32 -55.616 -28.359 1 92.01 ? C7' BNG 502 A 1 HETATM 14 C C8' BNG . . . D 4 -38.231 -55.521 -29.425 1 110.31 ? C8' BNG 502 A 1 HETATM 15 C C9' BNG . . . D 4 -38.846 -55.3 -30.79 1 92.85 ? C9' BNG 502 A 1 HETATM 16 O O1 BNG . . . D 4 -42.262 -49.237 -23.47 1 137.31 ? O1 BNG 502 A 1 HETATM 17 O O2 BNG . . . D 4 -41.43 -46.57 -23.259 1 149.76 ? O2 BNG 502 A 1 HETATM 18 O O3 BNG . . . D 4 -42.818 -45.105 -21.14 1 136.1 ? O3 BNG 502 A 1 HETATM 19 O O4 BNG . . . D 4 -42.573 -46.619 -18.636 1 169.49 ? O4 BNG 502 A 1 HETATM 20 O O5 BNG . . . D 4 -42.994 -49.18 -21.234 1 137.49 ? O5 BNG 502 A 1 HETATM 21 O O6 BNG . . . D 4 -43.289 -50.808 -18.92 1 143.1 ? O6 BNG 502 A 1 HETATM 22 H H1 BNG . . . D 4 -41.187 -48.743 -21.89 1 162.65 ? H1 BNG 502 A 1 HETATM 23 H H2 BNG . . . D 4 -43.273 -47.015 -22.695 1 160.3 ? H2 BNG 502 A 1 HETATM 24 H H3 BNG . . . D 4 -41.34 -46.355 -20.758 1 177.83 ? H3 BNG 502 A 1 HETATM 25 H H4 BNG . . . D 4 -43.968 -47.001 -19.987 1 187.93 ? H4 BNG 502 A 1 HETATM 26 H H5 BNG . . . D 4 -41.836 -48.83 -19.685 1 165.77 ? H5 BNG 502 A 1 HETATM 27 H H61 BNG . . . D 4 -44.584 -49.342 -19.222 1 181.07 ? H61 BNG 502 A 1 HETATM 28 H H62 BNG . . . D 4 -43.555 -49.048 -18.054 1 181.07 ? H62 BNG 502 A 1 HETATM 29 H "H1'1" BNG . . . D 4 -42.804 -51.13 -23.571 1 161.23 ? "H1'1" BNG 502 A 1 HETATM 30 H "H1'2" BNG . . . D 4 -41.581 -50.873 -22.596 1 161.23 ? "H1'2" BNG 502 A 1 HETATM 31 H "H2'1" BNG . . . D 4 -40.112 -50.994 -24.211 1 146.51 ? "H2'1" BNG 502 A 1 HETATM 32 H "H2'2" BNG . . . D 4 -41.045 -50.23 -25.229 1 146.51 ? "H2'2" BNG 502 A 1 HETATM 33 H "H3'1" BNG . . . D 4 -41.793 -52.075 -26.108 1 132.89 ? "H3'1" BNG 502 A 1 HETATM 34 H "H3'2" BNG . . . D 4 -41.913 -52.793 -24.706 1 132.89 ? "H3'2" BNG 502 A 1 HETATM 35 H "H4'1" BNG . . . D 4 -39.31 -52.47 -25.618 1 131.96 ? "H4'1" BNG 502 A 1 HETATM 36 H "H4'2" BNG . . . D 4 -39.932 -53.717 -24.868 1 131.96 ? "H4'2" BNG 502 A 1 HETATM 37 H "H5'1" BNG . . . D 4 -40.23 -53.141 -27.623 1 124.08 ? "H5'1" BNG 502 A 1 HETATM 38 H "H5'2" BNG . . . D 4 -41.045 -54.292 -26.908 1 124.08 ? "H5'2" BNG 502 A 1 HETATM 39 H "H6'1" BNG . . . D 4 -38.236 -54.244 -27.251 1 109.52 ? "H6'1" BNG 502 A 1 HETATM 40 H "H6'2" BNG . . . D 4 -38.957 -55.326 -26.352 1 109.52 ? "H6'2" BNG 502 A 1 HETATM 41 H "H7'1" BNG . . . D 4 -40.163 -55.341 -28.753 1 111.24 ? "H7'1" BNG 502 A 1 HETATM 42 H "H7'2" BNG . . . D 4 -39.397 -56.541 -28.077 1 111.24 ? "H7'2" BNG 502 A 1 HETATM 43 H "H8'1" BNG . . . D 4 -37.722 -56.347 -29.435 1 133.21 ? "H8'1" BNG 502 A 1 HETATM 44 H "H8'2" BNG . . . D 4 -37.636 -54.783 -29.224 1 133.21 ? "H8'2" BNG 502 A 1 HETATM 45 H "H9'1" BNG . . . D 4 -39.332 -54.461 -30.794 1 112.25 ? "H9'1" BNG 502 A 1 HETATM 46 H "H9'2" BNG . . . D 4 -39.455 -56.027 -30.992 1 112.25 ? "H9'2" BNG 502 A 1 HETATM 47 H "H9'3" BNG . . . D 4 -38.145 -55.27 -31.46 1 112.25 ? "H9'3" BNG 502 A 1 HETATM 48 H HO2 BNG . . . D 4 -41.623 -45.754 -23.399 1 180.54 ? HO2 BNG 502 A 1 HETATM 49 H HO3 BNG . . . D 4 -42.83 -44.723 -20.381 1 164.15 ? HO3 BNG 502 A 1 HETATM 50 H HO4 BNG . . . D 4 -43.13 -46.821 -18.027 1 204.22 ? HO4 BNG 502 A 1 HETATM 51 H HO6 BNG . . . D 4 -43.741 -51.213 -18.325 1 172.55 ? HO6 BNG 502 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 337 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 51 #