data_4GBY # _model_server_result.job_id KEEzgasz_JR3WSaKCMrNig _model_server_result.datetime_utc '2024-11-02 03:29:14' _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 4gby # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":504}' # _entry.id 4GBY # _exptl.entry_id 4GBY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 306.395 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'nonyl beta-D-glucopyranoside' _entity.pdbx_number_of_molecules 4 _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 4GBY _cell.length_a 95.29 _cell.length_b 95.29 _cell.length_c 168.181 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GBY _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 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 _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 ? 3 C N N ? 3 D N N ? 3 E N N ? 3 F N N # _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 70 n n C1 O1 BNG sing 71 n n C1 O5 BNG sing 72 n n C1 H1 BNG sing 73 n n C2 C3 BNG sing 74 n n C2 O2 BNG sing 75 n n C2 H2 BNG sing 76 n n C3 C4 BNG sing 77 n n C3 O3 BNG sing 78 n n C3 H3 BNG sing 79 n n C4 C5 BNG sing 80 n n C4 O4 BNG sing 81 n n C4 H4 BNG sing 82 n n C5 C6 BNG sing 83 n n C5 O5 BNG sing 84 n n C5 H5 BNG sing 85 n n C6 O6 BNG sing 86 n n C6 H61 BNG sing 87 n n C6 H62 BNG sing 88 n n C1' C2' BNG sing 89 n n C1' O1 BNG sing 90 n n C1' "H1'1" BNG sing 91 n n C1' "H1'2" BNG sing 92 n n C2' C3' BNG sing 93 n n C2' "H2'1" BNG sing 94 n n C2' "H2'2" BNG sing 95 n n C3' C4' BNG sing 96 n n C3' "H3'1" BNG sing 97 n n C3' "H3'2" BNG sing 98 n n C4' C5' BNG sing 99 n n C4' "H4'1" BNG sing 100 n n C4' "H4'2" BNG sing 101 n n C5' C6' BNG sing 102 n n C5' "H5'1" BNG sing 103 n n C5' "H5'2" BNG sing 104 n n C6' C7' BNG sing 105 n n C6' "H6'1" BNG sing 106 n n C6' "H6'2" BNG sing 107 n n C7' C8' BNG sing 108 n n C7' "H7'1" BNG sing 109 n n C7' "H7'2" BNG sing 110 n n C8' C9' BNG sing 111 n n C8' "H8'1" BNG sing 112 n n C8' "H8'2" BNG sing 113 n n C9' "H9'1" BNG sing 114 n n C9' "H9'2" BNG sing 115 n n C9' "H9'3" BNG sing 116 n n O2 HO2 BNG sing 117 n n O3 HO3 BNG sing 118 n n O4 HO4 BNG sing 119 n n O6 HO6 BNG sing 120 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 4GBY _atom_sites.fract_transf_matrix[1][1] 0.010494 _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] 0.010494 _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] 0.005946 _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 XYP A 1 501 1 XYP DXY . C 3 BNG A 1 502 1 BNG BNG . D 3 BNG A 1 503 2 BNG BNG . E 3 BNG A 1 504 3 BNG BNG . F 3 BNG A 1 505 4 BNG BNG . G 4 HOH A 1 601 1 HOH HOH . G 4 HOH A 2 602 2 HOH HOH . G 4 HOH A 3 603 3 HOH HOH . G 4 HOH A 4 604 4 HOH HOH . G 4 HOH A 5 605 5 HOH HOH . G 4 HOH A 6 606 6 HOH HOH . # 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 3 46.053 -14.932 -21.984 1 125.02 ? C1 BNG 504 A 1 HETATM 2 C C2 BNG . . . E 3 45.794 -14.316 -23.345 1 125.76 ? C2 BNG 504 A 1 HETATM 3 C C3 BNG . . . E 3 46.233 -12.869 -23.373 1 127.33 ? C3 BNG 504 A 1 HETATM 4 C C4 BNG . . . E 3 45.686 -12.121 -22.181 1 126.59 ? C4 BNG 504 A 1 HETATM 5 C C5 BNG . . . E 3 45.951 -12.854 -20.89 1 125.79 ? C5 BNG 504 A 1 HETATM 6 C C6 BNG . . . E 3 45.221 -12.147 -19.773 1 124.95 ? C6 BNG 504 A 1 HETATM 7 C C1' BNG . . . E 3 45.956 -16.957 -20.81 1 123.28 ? C1' BNG 504 A 1 HETATM 8 C C2' BNG . . . E 3 44.784 -17.394 -19.948 1 121.26 ? C2' BNG 504 A 1 HETATM 9 C C3' BNG . . . E 3 44.275 -18.77 -20.347 1 120.21 ? C3' BNG 504 A 1 HETATM 10 C C4' BNG . . . E 3 44.307 -19.732 -19.168 1 119.49 ? C4' BNG 504 A 1 HETATM 11 C C5' BNG . . . E 3 43.788 -21.107 -19.572 1 118.62 ? C5' BNG 504 A 1 HETATM 12 C C6' BNG . . . E 3 44.284 -22.207 -18.641 1 118.71 ? C6' BNG 504 A 1 HETATM 13 C C7' BNG . . . E 3 44.082 -23.59 -19.249 1 118.47 ? C7' BNG 504 A 1 HETATM 14 C C8' BNG . . . E 3 43.693 -23.512 -20.72 1 118.54 ? C8' BNG 504 A 1 HETATM 15 C C9' BNG . . . E 3 42.647 -24.55 -21.048 1 117.39 ? C9' BNG 504 A 1 HETATM 16 O O1 BNG . . . E 3 45.488 -16.232 -21.939 1 123.54 ? O1 BNG 504 A 1 HETATM 17 O O2 BNG . . . E 3 46.539 -15.024 -24.333 1 126.82 ? O2 BNG 504 A 1 HETATM 18 O O3 BNG . . . E 3 45.738 -12.254 -24.559 1 127.85 ? O3 BNG 504 A 1 HETATM 19 O O4 BNG . . . E 3 46.347 -10.867 -22.113 1 128.42 ? O4 BNG 504 A 1 HETATM 20 O O5 BNG . . . E 3 45.425 -14.159 -20.982 1 124.26 ? O5 BNG 504 A 1 HETATM 21 O O6 BNG . . . E 3 43.969 -11.699 -20.289 1 123.95 ? O6 BNG 504 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 222 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 21 #