data_6PGS # _model_server_result.job_id EaF-O0GdvI2X6cJNz1xqPg _model_server_result.datetime_utc '2024-11-09 01:48:20' _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 6pgs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 6PGS # _exptl.entry_id 6PGS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 292.369 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'octyl 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 6PGS _cell.length_a 243.919 _cell.length_b 243.919 _cell.length_c 109.732 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PGS _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 _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 # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type 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 BMA BMA C1 O1 . O3 HO3 . 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 D 1 NAG 3 n C NAG 2 C 2 NAG D 1 NAG 3 n C BMA 3 C 3 BMA D 1 BMA 3 n C BMA 4 C 4 BMA D 1 BMA # 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 15 A ASN 15 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale2 A SG CYS 323 A CYS 323 1_555 E C1 PLM . A PLM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.628 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale5 C O3 BMA . C BMA 3 1_555 C C1 BMA . C BMA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? # _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 122 n n C1 C2 BOG sing 123 n n C1 O5 BOG sing 124 n n C1 H1 BOG sing 125 n n O1 C1' BOG sing 126 n n C2 O2 BOG sing 127 n n C2 C3 BOG sing 128 n n C2 H2 BOG sing 129 n n O2 HO2 BOG sing 130 n n C3 O3 BOG sing 131 n n C3 C4 BOG sing 132 n n C3 H3 BOG sing 133 n n O3 HO3 BOG sing 134 n n C4 O4 BOG sing 135 n n C4 C5 BOG sing 136 n n C4 H4 BOG sing 137 n n O4 HO4 BOG sing 138 n n C5 O5 BOG sing 139 n n C5 C6 BOG sing 140 n n C5 H5 BOG sing 141 n n C6 O6 BOG sing 142 n n C6 H61 BOG sing 143 n n C6 H62 BOG sing 144 n n O6 HO6 BOG sing 145 n n C1' C2' BOG sing 146 n n C1' "H1'1" BOG sing 147 n n C1' "H1'2" BOG sing 148 n n C2' C3' BOG sing 149 n n C2' "H2'1" BOG sing 150 n n C2' "H2'2" BOG sing 151 n n C3' C4' BOG sing 152 n n C3' "H3'1" BOG sing 153 n n C3' "H3'2" BOG sing 154 n n C4' C5' BOG sing 155 n n C4' "H4'1" BOG sing 156 n n C4' "H4'2" BOG sing 157 n n C5' C6' BOG sing 158 n n C5' "H5'1" BOG sing 159 n n C5' "H5'2" BOG sing 160 n n C6' C7' BOG sing 161 n n C6' "H6'1" BOG sing 162 n n C6' "H6'2" BOG sing 163 n n C7' C8' BOG sing 164 n n C7' "H7'1" BOG sing 165 n n C7' "H7'2" BOG sing 166 n n C8' "H8'1" BOG sing 167 n n C8' "H8'2" BOG sing 168 n n C8' "H8'3" BOG sing 169 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 6PGS _atom_sites.fract_transf_matrix[1][1] 0.0041 _atom_sites.fract_transf_matrix[1][2] 0.002367 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004734 _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] 0.009113 _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 D 4 BOG A 1 401 1 BOG BOG . E 5 PLM A 1 402 1 PLM PLM . F 6 64Z A 1 403 1 64Z 64Z . # 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 . . . D 4 37.419 53.336 47.95 1 126.42 ? C1 BOG 401 A 1 HETATM 2 O O1 BOG . . . D 4 37.306 52.009 48.379 1 113.33 ? O1 BOG 401 A 1 HETATM 3 C C2 BOG . . . D 4 36.485 54.206 48.794 1 134.72 ? C2 BOG 401 A 1 HETATM 4 O O2 BOG . . . D 4 35.556 54.819 47.94 1 135.32 ? O2 BOG 401 A 1 HETATM 5 C C3 BOG . . . D 4 37.157 55.256 49.578 1 129.27 ? C3 BOG 401 A 1 HETATM 6 O O3 BOG . . . D 4 37.689 54.668 50.734 1 121.44 ? O3 BOG 401 A 1 HETATM 7 C C4 BOG . . . D 4 38.235 55.985 48.892 1 123.59 ? C4 BOG 401 A 1 HETATM 8 O O4 BOG . . . D 4 37.686 57.117 48.273 1 106.22 ? O4 BOG 401 A 1 HETATM 9 C C5 BOG . . . D 4 38.973 55.162 47.839 1 126.64 ? C5 BOG 401 A 1 HETATM 10 O O5 BOG . . . D 4 38.816 53.733 48.079 1 128.21 ? O5 BOG 401 A 1 HETATM 11 C C6 BOG . . . D 4 40.46 55.507 47.877 1 123.4 ? C6 BOG 401 A 1 HETATM 12 O O6 BOG . . . D 4 40.988 55.054 49.093 1 119.4 ? O6 BOG 401 A 1 HETATM 13 C C1' BOG . . . D 4 36.152 51.355 47.936 1 101.29 ? C1' BOG 401 A 1 HETATM 14 C C2' BOG . . . D 4 36.058 50.01 48.652 1 103.91 ? C2' BOG 401 A 1 HETATM 15 C C3' BOG . . . D 4 35.781 48.857 47.69 1 100.73 ? C3' BOG 401 A 1 HETATM 16 C C4' BOG . . . D 4 35.262 47.614 48.408 1 94.41 ? C4' BOG 401 A 1 HETATM 17 C C5' BOG . . . D 4 35.406 46.343 47.574 1 84.64 ? C5' BOG 401 A 1 HETATM 18 C C6' BOG . . . D 4 34.395 45.278 47.99 1 83.95 ? C6' BOG 401 A 1 HETATM 19 C C7' BOG . . . D 4 34.888 43.851 47.762 1 86.1 ? C7' BOG 401 A 1 HETATM 20 C C8' BOG . . . D 4 33.915 42.816 48.322 1 77.08 ? C8' BOG 401 A 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 20 #