data_5WKT # _model_server_result.job_id WPtdgjcskqHotexXc2Eojw _model_server_result.datetime_utc '2024-11-13 04:40:46' _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":"F","auth_seq_id":406}' # _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 . . . F 5 -11.737 27.481 46.844 1 20 ? C1 BOG 406 A 1 HETATM 2 O O1 BOG . . . F 5 -11.491 28.809 47.258 1 20 ? O1 BOG 406 A 1 HETATM 3 C C2 BOG . . . F 5 -11.193 26.497 47.87 1 20 ? C2 BOG 406 A 1 HETATM 4 O O2 BOG . . . F 5 -11.417 25.164 47.405 1 20 ? O2 BOG 406 A 1 HETATM 5 C C3 BOG . . . F 5 -11.849 26.683 49.222 1 20 ? C3 BOG 406 A 1 HETATM 6 O O3 BOG . . . F 5 -11.007 27.453 50.071 1 20 ? O3 BOG 406 A 1 HETATM 7 C C4 BOG . . . F 5 -13.167 27.395 49.056 1 20 ? C4 BOG 406 A 1 HETATM 8 O O4 BOG . . . F 5 -13.984 27.089 50.175 1 20 ? O4 BOG 406 A 1 HETATM 9 C C5 BOG . . . F 5 -13.847 26.895 47.802 1 20 ? C5 BOG 406 A 1 HETATM 10 O O5 BOG . . . F 5 -13.141 27.351 46.659 1 20 ? O5 BOG 406 A 1 HETATM 11 C C6 BOG . . . F 5 -15.285 27.371 47.716 1 20 ? C6 BOG 406 A 1 HETATM 12 O O6 BOG . . . F 5 -15.966 26.567 46.752 1 20 ? O6 BOG 406 A 1 HETATM 13 C C1' BOG . . . F 5 -11.457 29.646 46.111 1 20 ? C1' BOG 406 A 1 HETATM 14 C C2' BOG . . . F 5 -10.008 29.888 45.715 1 20 ? C2' BOG 406 A 1 HETATM 15 C C3' BOG . . . F 5 -9.819 30.017 44.211 1 20 ? C3' BOG 406 A 1 HETATM 16 C C4' BOG . . . F 5 -8.451 30.593 43.882 1 20 ? C4' BOG 406 A 1 HETATM 17 C C5' BOG . . . F 5 -8.202 30.572 42.385 1 20 ? C5' BOG 406 A 1 HETATM 18 C C6' BOG . . . F 5 -7.208 31.639 41.967 1 20 ? C6' BOG 406 A 1 HETATM 19 C C7' BOG . . . F 5 -6.634 31.337 40.595 1 20 ? C7' BOG 406 A 1 HETATM 20 C C8' BOG . . . F 5 -6.642 32.561 39.718 1 20 ? C8' BOG 406 A 1 HETATM 21 H H1 BOG . . . F 5 -11.226 27.298 45.889 1 20 ? H1 BOG 406 A 1 HETATM 22 H H2 BOG . . . F 5 -10.113 26.672 47.98 1 20 ? H2 BOG 406 A 1 HETATM 23 H HO2 BOG . . . F 5 -10.583 24.675 47.412 1 20 ? HO2 BOG 406 A 1 HETATM 24 H H3 BOG . . . F 5 -12.031 25.695 49.668 1 20 ? H3 BOG 406 A 1 HETATM 25 H HO3 BOG . . . F 5 -11.353 27.431 50.974 1 20 ? HO3 BOG 406 A 1 HETATM 26 H H4 BOG . . . F 5 -12.997 28.478 48.98 1 20 ? H4 BOG 406 A 1 HETATM 27 H HO4 BOG . . . F 5 -14.819 27.571 50.106 1 20 ? HO4 BOG 406 A 1 HETATM 28 H H5 BOG . . . F 5 -13.845 25.796 47.82 1 20 ? H5 BOG 406 A 1 HETATM 29 H H61 BOG . . . F 5 -15.315 28.42 47.416 1 20 ? H61 BOG 406 A 1 HETATM 30 H H62 BOG . . . F 5 -15.769 27.276 48.69 1 20 ? H62 BOG 406 A 1 HETATM 31 H HO6 BOG . . . F 5 -15.978 27.026 45.901 1 20 ? HO6 BOG 406 A 1 HETATM 32 H "H1'1" BOG . . . F 5 -11.945 30.598 46.332 1 20 ? "H1'1" BOG 406 A 1 HETATM 33 H "H1'2" BOG . . . F 5 -11.993 29.169 45.288 1 20 ? "H1'2" BOG 406 A 1 HETATM 34 H "H2'1" BOG . . . F 5 -9.396 29.061 46.082 1 20 ? "H2'1" BOG 406 A 1 HETATM 35 H "H2'2" BOG . . . F 5 -9.653 30.8 46.199 1 20 ? "H2'2" BOG 406 A 1 HETATM 36 H "H3'1" BOG . . . F 5 -10.596 30.667 43.801 1 20 ? "H3'1" BOG 406 A 1 HETATM 37 H "H3'2" BOG . . . F 5 -9.922 29.035 43.745 1 20 ? "H3'2" BOG 406 A 1 HETATM 38 H "H4'1" BOG . . . F 5 -7.679 30.011 44.389 1 20 ? "H4'1" BOG 406 A 1 HETATM 39 H "H4'2" BOG . . . F 5 -8.391 31.621 44.247 1 20 ? "H4'2" BOG 406 A 1 HETATM 40 H "H5'1" BOG . . . F 5 -9.146 30.731 41.859 1 20 ? "H5'1" BOG 406 A 1 HETATM 41 H "H5'2" BOG . . . F 5 -7.821 29.59 42.096 1 20 ? "H5'2" BOG 406 A 1 HETATM 42 H "H6'1" BOG . . . F 5 -6.398 31.689 42.698 1 20 ? "H6'1" BOG 406 A 1 HETATM 43 H "H6'2" BOG . . . F 5 -7.704 32.612 41.948 1 20 ? "H6'2" BOG 406 A 1 HETATM 44 H "H7'1" BOG . . . F 5 -7.221 30.548 40.122 1 20 ? "H7'1" BOG 406 A 1 HETATM 45 H "H7'2" BOG . . . F 5 -5.61 30.974 40.702 1 20 ? "H7'2" BOG 406 A 1 HETATM 46 H "H8'1" BOG . . . F 5 -7.169 32.351 38.824 1 20 ? "H8'1" BOG 406 A 1 HETATM 47 H "H8'2" BOG . . . F 5 -5.646 32.836 39.486 1 20 ? "H8'2" BOG 406 A 1 HETATM 48 H "H8'3" BOG . . . F 5 -7.118 33.358 40.229 1 20 ? "H8'3" BOG 406 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 20 _model_server_stats.element_count 48 #