data_5WKT # _model_server_result.job_id 64Y8jc7GwyTy-wWm3pmnIg _model_server_result.datetime_utc '2024-11-13 04:27:57' _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 5wkt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":405}' # _entry.id 5WKT # _exptl.entry_id 5WKT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 292.369 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'octyl beta-D-glucopyranoside' _entity.pdbx_number_of_molecules 3 _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 5WKT _cell.length_a 242.043 _cell.length_b 242.043 _cell.length_c 110.637 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WKT _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _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 ? 5 E N N ? 5 F N N ? 5 G N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 4 1 2 GLC GLC C1 O1 . O1 HO1 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 C 1 NAG A 401 NAG 3 n C NAG 2 C 2 NAG A 402 NAG 3 n C BMA 3 C 3 BMA A 403 BMA 3 n C MAN 4 C 4 MAN A 404 MAN 4 n D GLC 1 D 1 GLC A 412 TRE 4 n D GLC 2 D 2 GLC A 412 TRE # 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 disulf ? disulf1 A SG CYS 110 A CYS 110 1_555 A SG CYS 187 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 15 A ASN 15 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale2 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale4 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale5 D C1 GLC . D GLC 1 1_555 D O1 GLC . D GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.419 sing # _chem_comp.formula 'C14 H28 O6' _chem_comp.formula_weight 292.369 _chem_comp.id BOG _chem_comp.mon_nstd_flag n _chem_comp.name 'octyl beta-D-glucopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms 'Beta-Octylglucoside;octyl beta-D-glucoside;octyl D-glucoside;octyl 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 O1 BOG sing 94 n n C1 C2 BOG sing 95 n n C1 O5 BOG sing 96 n n C1 H1 BOG sing 97 n n O1 C1' BOG sing 98 n n C2 O2 BOG sing 99 n n C2 C3 BOG sing 100 n n C2 H2 BOG sing 101 n n O2 HO2 BOG sing 102 n n C3 O3 BOG sing 103 n n C3 C4 BOG sing 104 n n C3 H3 BOG sing 105 n n O3 HO3 BOG sing 106 n n C4 O4 BOG sing 107 n n C4 C5 BOG sing 108 n n C4 H4 BOG sing 109 n n O4 HO4 BOG sing 110 n n C5 O5 BOG sing 111 n n C5 C6 BOG sing 112 n n C5 H5 BOG sing 113 n n C6 O6 BOG sing 114 n n C6 H61 BOG sing 115 n n C6 H62 BOG sing 116 n n O6 HO6 BOG sing 117 n n C1' C2' BOG sing 118 n n C1' "H1'1" BOG sing 119 n n C1' "H1'2" BOG sing 120 n n C2' C3' BOG sing 121 n n C2' "H2'1" BOG sing 122 n n C2' "H2'2" BOG sing 123 n n C3' C4' BOG sing 124 n n C3' "H3'1" BOG sing 125 n n C3' "H3'2" BOG sing 126 n n C4' C5' BOG sing 127 n n C4' "H4'1" BOG sing 128 n n C4' "H4'2" BOG sing 129 n n C5' C6' BOG sing 130 n n C5' "H5'1" BOG sing 131 n n C5' "H5'2" BOG sing 132 n n C6' C7' BOG sing 133 n n C6' "H6'1" BOG sing 134 n n C6' "H6'2" BOG sing 135 n n C7' C8' BOG sing 136 n n C7' "H7'1" BOG sing 137 n n C7' "H7'2" BOG sing 138 n n C8' "H8'1" BOG sing 139 n n C8' "H8'2" BOG sing 140 n n C8' "H8'3" BOG sing 141 n n # _pdbx_chem_comp_identifier.comp_id BOG _pdbx_chem_comp_identifier.identifier b-octylglucoside _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 5WKT _atom_sites.fract_transf_matrix[1][1] 0.004131 _atom_sites.fract_transf_matrix[1][2] 0.002385 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004771 _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] 0.009039 _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 E 5 BOG A 1 405 405 BOG BOG . F 5 BOG A 1 406 406 BOG BOG . G 5 BOG A 1 407 407 BOG BOG . H 6 SO4 B 1 401 401 SO4 SO4 . # 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 BOG . . . E 5 14.441 46.175 35.195 1 20 ? C1 BOG 405 A 1 HETATM 2 O O1 BOG . . . E 5 13.994 47.029 36.239 1 20 ? O1 BOG 405 A 1 HETATM 3 C C2 BOG . . . E 5 15.939 45.922 35.406 1 20 ? C2 BOG 405 A 1 HETATM 4 O O2 BOG . . . E 5 16.496 45.196 34.3 1 20 ? O2 BOG 405 A 1 HETATM 5 C C3 BOG . . . E 5 16.222 45.158 36.7 1 20 ? C3 BOG 405 A 1 HETATM 6 O O3 BOG . . . E 5 16.967 45.939 37.629 1 20 ? O3 BOG 405 A 1 HETATM 7 C C4 BOG . . . E 5 14.915 44.729 37.323 1 20 ? C4 BOG 405 A 1 HETATM 8 O O4 BOG . . . E 5 15.088 43.873 38.446 1 20 ? O4 BOG 405 A 1 HETATM 9 C C5 BOG . . . E 5 14.252 44.016 36.168 1 20 ? C5 BOG 405 A 1 HETATM 10 O O5 BOG . . . E 5 13.68 44.966 35.281 1 20 ? O5 BOG 405 A 1 HETATM 11 C C6 BOG . . . E 5 13.235 43.038 36.684 1 20 ? C6 BOG 405 A 1 HETATM 12 O O6 BOG . . . E 5 13.952 42.212 37.597 1 20 ? O6 BOG 405 A 1 HETATM 13 C C1' BOG . . . E 5 12.58 47.054 36.438 1 20 ? C1' BOG 405 A 1 HETATM 14 C C2' BOG . . . E 5 11.865 46.963 35.1 1 20 ? C2' BOG 405 A 1 HETATM 15 C C3' BOG . . . E 5 10.582 47.772 35.134 1 20 ? C3' BOG 405 A 1 HETATM 16 C C4' BOG . . . E 5 10.381 48.502 33.817 1 20 ? C4' BOG 405 A 1 HETATM 17 C C5' BOG . . . E 5 9.174 47.963 33.064 1 20 ? C5' BOG 405 A 1 HETATM 18 C C6' BOG . . . E 5 7.88 48.366 33.755 1 20 ? C6' BOG 405 A 1 HETATM 19 C C7' BOG . . . E 5 7.355 47.23 34.612 1 20 ? C7' BOG 405 A 1 HETATM 20 C C8' BOG . . . E 5 5.872 47.363 34.831 1 20 ? C8' BOG 405 A 1 HETATM 21 H H1 BOG . . . E 5 14.288 46.654 34.218 1 20 ? H1 BOG 405 A 1 HETATM 22 H H2 BOG . . . E 5 16.437 46.899 35.477 1 20 ? H2 BOG 405 A 1 HETATM 23 H HO2 BOG . . . E 5 16.086 45.496 33.478 1 20 ? HO2 BOG 405 A 1 HETATM 24 H H3 BOG . . . E 5 16.793 44.254 36.446 1 20 ? H3 BOG 405 A 1 HETATM 25 H HO3 BOG . . . E 5 17.766 46.274 37.2 1 20 ? HO3 BOG 405 A 1 HETATM 26 H H4 BOG . . . E 5 14.327 45.616 37.594 1 20 ? H4 BOG 405 A 1 HETATM 27 H HO4 BOG . . . E 5 15.86 44.159 38.953 1 20 ? HO4 BOG 405 A 1 HETATM 28 H H5 BOG . . . E 5 15.026 43.448 35.633 1 20 ? H5 BOG 405 A 1 HETATM 29 H H61 BOG . . . E 5 12.824 42.442 35.867 1 20 ? H61 BOG 405 A 1 HETATM 30 H H62 BOG . . . E 5 12.422 43.559 37.193 1 20 ? H62 BOG 405 A 1 HETATM 31 H HO6 BOG . . . E 5 13.64 41.3 37.519 1 20 ? HO6 BOG 405 A 1 HETATM 32 H "H1'1" BOG . . . E 5 12.296 47.979 36.944 1 20 ? "H1'1" BOG 405 A 1 HETATM 33 H "H1'2" BOG . . . E 5 12.283 46.215 37.071 1 20 ? "H1'2" BOG 405 A 1 HETATM 34 H "H2'1" BOG . . . E 5 11.638 45.919 34.874 1 20 ? "H2'1" BOG 405 A 1 HETATM 35 H "H2'2" BOG . . . E 5 12.506 47.351 34.305 1 20 ? "H2'2" BOG 405 A 1 HETATM 36 H "H3'1" BOG . . . E 5 10.626 48.495 35.951 1 20 ? "H3'1" BOG 405 A 1 HETATM 37 H "H3'2" BOG . . . E 5 9.735 47.107 35.317 1 20 ? "H3'2" BOG 405 A 1 HETATM 38 H "H4'1" BOG . . . E 5 11.274 48.389 33.2 1 20 ? "H4'1" BOG 405 A 1 HETATM 39 H "H4'2" BOG . . . E 5 10.241 49.567 34.011 1 20 ? "H4'2" BOG 405 A 1 HETATM 40 H "H5'1" BOG . . . E 5 9.235 46.874 33.01 1 20 ? "H5'1" BOG 405 A 1 HETATM 41 H "H5'2" BOG . . . E 5 9.179 48.35 32.043 1 20 ? "H5'2" BOG 405 A 1 HETATM 42 H "H6'1" BOG . . . E 5 7.133 48.632 33.004 1 20 ? "H6'1" BOG 405 A 1 HETATM 43 H "H6'2" BOG . . . E 5 8.057 49.244 34.38 1 20 ? "H6'2" BOG 405 A 1 HETATM 44 H "H7'1" BOG . . . E 5 7.868 47.235 35.577 1 20 ? "H7'1" BOG 405 A 1 HETATM 45 H "H7'2" BOG . . . E 5 7.568 46.276 34.124 1 20 ? "H7'2" BOG 405 A 1 HETATM 46 H "H8'1" BOG . . . E 5 5.557 46.655 35.553 1 20 ? "H8'1" BOG 405 A 1 HETATM 47 H "H8'2" BOG . . . E 5 5.364 47.187 33.919 1 20 ? "H8'2" BOG 405 A 1 HETATM 48 H "H8'3" BOG . . . E 5 5.652 48.34 35.175 1 20 ? "H8'3" BOG 405 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #