data_4RI2 # _model_server_result.job_id lhNL5_yNvg1ImWlgdDdJeg _model_server_result.datetime_utc '2024-11-08 18:01:08' _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 4ri2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 4RI2 # _exptl.entry_id 4RI2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 306.395 _entity.id 2 _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 4RI2 _cell.length_a 71.999 _cell.length_b 77.537 _cell.length_c 93.184 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4RI2 _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,I,J _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 C N N ? 2 D N N ? 2 F N N ? 2 G N N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id OD1 _struct_conn.ptnr1_label_comp_id ASN _struct_conn.ptnr1_label_seq_id 67 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id ASN _struct_conn.ptnr1_auth_seq_id 67 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id H _struct_conn.ptnr2_label_atom_id HG _struct_conn.ptnr2_label_comp_id HG _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id HG _struct_conn.ptnr2_auth_seq_id 304 _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 2.198 _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 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 4RI2 _atom_sites.fract_transf_matrix[1][1] 0.013889 _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] 0.012897 _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] 0.010731 _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 BNG A 1 301 1 BNG BNG . D 2 BNG A 1 302 2 BNG BNG . E 3 CLA B 1 301 1 CLA CLA . F 2 BNG B 1 302 3 BNG BNG . G 2 BNG B 1 303 4 BNG BNG . H 4 HG B 1 304 1 HG HG . I 5 HOH A 1 401 2 HOH HOH . I 5 HOH A 2 402 3 HOH HOH . I 5 HOH A 3 403 4 HOH HOH . I 5 HOH A 4 404 6 HOH HOH . I 5 HOH A 5 405 7 HOH HOH . I 5 HOH A 6 406 10 HOH HOH . I 5 HOH A 7 407 11 HOH HOH . I 5 HOH A 8 408 12 HOH HOH . I 5 HOH A 9 409 14 HOH HOH . I 5 HOH A 10 410 16 HOH HOH . I 5 HOH A 11 411 17 HOH HOH . I 5 HOH A 12 412 18 HOH HOH . I 5 HOH A 13 413 19 HOH HOH . I 5 HOH A 14 414 21 HOH HOH . I 5 HOH A 15 415 23 HOH HOH . I 5 HOH A 16 416 24 HOH HOH . I 5 HOH A 17 417 26 HOH HOH . I 5 HOH A 18 418 27 HOH HOH . I 5 HOH A 19 419 30 HOH HOH . I 5 HOH A 20 420 32 HOH HOH . I 5 HOH A 21 421 33 HOH HOH . I 5 HOH A 22 422 34 HOH HOH . I 5 HOH A 23 423 36 HOH HOH . I 5 HOH A 24 424 38 HOH HOH . I 5 HOH A 25 425 42 HOH HOH . I 5 HOH A 26 426 43 HOH HOH . J 5 HOH B 1 401 1 HOH HOH . J 5 HOH B 2 402 5 HOH HOH . J 5 HOH B 3 403 8 HOH HOH . J 5 HOH B 4 404 9 HOH HOH . J 5 HOH B 5 405 13 HOH HOH . J 5 HOH B 6 406 15 HOH HOH . J 5 HOH B 7 407 20 HOH HOH . J 5 HOH B 8 408 22 HOH HOH . J 5 HOH B 9 409 25 HOH HOH . J 5 HOH B 10 410 28 HOH HOH . J 5 HOH B 11 411 29 HOH HOH . J 5 HOH B 12 412 31 HOH HOH . J 5 HOH B 13 413 35 HOH HOH . J 5 HOH B 14 414 37 HOH HOH . J 5 HOH B 15 415 39 HOH HOH . J 5 HOH B 16 416 40 HOH HOH . J 5 HOH B 17 417 41 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 . . . C 2 -4.66 -20.481 13.235 1 67.67 ? C1 BNG 301 A 1 HETATM 2 C C2 BNG . . . C 2 -5.244 -21.108 11.96 1 69.45 ? C2 BNG 301 A 1 HETATM 3 C C3 BNG . . . C 2 -4.272 -21.199 10.851 1 71.87 ? C3 BNG 301 A 1 HETATM 4 C C4 BNG . . . C 2 -3.633 -19.963 10.575 1 72.67 ? C4 BNG 301 A 1 HETATM 5 C C5 BNG . . . C 2 -2.933 -19.443 11.816 1 63.38 ? C5 BNG 301 A 1 HETATM 6 C C6 BNG . . . C 2 -2.371 -18.106 11.546 1 65.94 ? C6 BNG 301 A 1 HETATM 7 C C1' BNG . . . C 2 -6.164 -20.887 15.072 1 70.13 ? C1' BNG 301 A 1 HETATM 8 C C2' BNG . . . C 2 -7.326 -20.331 15.916 1 66.36 ? C2' BNG 301 A 1 HETATM 9 C C3' BNG . . . C 2 -8.519 -21.252 16.249 1 65.7 ? C3' BNG 301 A 1 HETATM 10 C C4' BNG . . . C 2 -9.928 -20.612 16.28 1 67.83 ? C4' BNG 301 A 1 HETATM 11 C C5' BNG . . . C 2 -11.094 -21.431 16.835 1 71.95 ? C5' BNG 301 A 1 HETATM 12 C C6' BNG . . . C 2 -12.498 -21.033 16.412 1 67.7 ? C6' BNG 301 A 1 HETATM 13 C C7' BNG . . . C 2 -12.64 -20.195 15.144 1 59.47 ? C7' BNG 301 A 1 HETATM 14 C C8' BNG . . . C 2 -13.934 -19.382 14.959 1 66.54 ? C8' BNG 301 A 1 HETATM 15 C C9' BNG . . . C 2 -14.468 -18.624 16.155 1 57.55 ? C9' BNG 301 A 1 HETATM 16 O O1 BNG . . . C 2 -5.691 -20.077 14.057 1 68.52 ? O1 BNG 301 A 1 HETATM 17 O O2 BNG . . . C 2 -5.766 -22.381 12.246 1 85.29 ? O2 BNG 301 A 1 HETATM 18 O O3 BNG . . . C 2 -4.922 -21.713 9.652 1 73.57 ? O3 BNG 301 A 1 HETATM 19 O O4 BNG . . . C 2 -2.686 -20.141 9.522 1 77.87 ? O4 BNG 301 A 1 HETATM 20 O O5 BNG . . . C 2 -3.828 -19.371 12.998 1 61.54 ? O5 BNG 301 A 1 HETATM 21 O O6 BNG . . . C 2 -1.787 -17.889 10.297 1 71.48 ? O6 BNG 301 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 21 #