data_6QD5 # _model_server_result.job_id begcrET57BsEt_o-1IQVEg _model_server_result.datetime_utc '2024-12-23 20:07:11' _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 6qd5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":405}' # _entry.id 6QD5 # _exptl.entry_id 6QD5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 292.369 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'octyl beta-D-glucopyranoside' _entity.pdbx_number_of_molecules 7 _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 6QD5 _cell.length_a 112.331 _cell.length_b 112.331 _cell.length_c 87.94 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6QD5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,K,L _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_755 -y+2,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 224.662 0 0 3 'crystal symmetry operation' 3_775 -x+y+2,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 112.331 194.562999 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _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 70 n n C1 C2 BOG sing 71 n n C1 O5 BOG sing 72 n n C1 H1 BOG sing 73 n n O1 C1' BOG sing 74 n n C2 O2 BOG sing 75 n n C2 C3 BOG sing 76 n n C2 H2 BOG sing 77 n n O2 HO2 BOG sing 78 n n C3 O3 BOG sing 79 n n C3 C4 BOG sing 80 n n C3 H3 BOG sing 81 n n O3 HO3 BOG sing 82 n n C4 O4 BOG sing 83 n n C4 C5 BOG sing 84 n n C4 H4 BOG sing 85 n n O4 HO4 BOG sing 86 n n C5 O5 BOG sing 87 n n C5 C6 BOG sing 88 n n C5 H5 BOG sing 89 n n C6 O6 BOG sing 90 n n C6 H61 BOG sing 91 n n C6 H62 BOG sing 92 n n O6 HO6 BOG sing 93 n n C1' C2' BOG sing 94 n n C1' "H1'1" BOG sing 95 n n C1' "H1'2" BOG sing 96 n n C2' C3' BOG sing 97 n n C2' "H2'1" BOG sing 98 n n C2' "H2'2" BOG sing 99 n n C3' C4' BOG sing 100 n n C3' "H3'1" BOG sing 101 n n C3' "H3'2" BOG sing 102 n n C4' C5' BOG sing 103 n n C4' "H4'1" BOG sing 104 n n C4' "H4'2" BOG sing 105 n n C5' C6' BOG sing 106 n n C5' "H5'1" BOG sing 107 n n C5' "H5'2" BOG sing 108 n n C6' C7' BOG sing 109 n n C6' "H6'1" BOG sing 110 n n C6' "H6'2" BOG sing 111 n n C7' C8' BOG sing 112 n n C7' "H7'1" BOG sing 113 n n C7' "H7'2" BOG sing 114 n n C8' "H8'1" BOG sing 115 n n C8' "H8'2" BOG sing 116 n n C8' "H8'3" BOG sing 117 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 6QD5 _atom_sites.fract_transf_matrix[1][1] 0.008902 _atom_sites.fract_transf_matrix[1][2] 0.00514 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010279 _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] 0.011371 _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 BOG A 1 401 1 BOG BOG . C 2 BOG A 1 402 2 BOG BOG . D 2 BOG A 1 403 3 BOG BOG . E 2 BOG A 1 404 4 BOG BOG . F 2 BOG A 1 405 5 BOG BOG . G 2 BOG A 1 406 6 BOG BOG . H 2 BOG A 1 407 7 BOG BOG . I 3 Y01 A 1 408 1 Y01 Y01 . J 4 PG4 A 1 409 1 PG4 PG4 . K 4 PG4 A 1 410 2 PG4 PG4 . L 5 HOH A 1 501 61 HOH HOH . L 5 HOH A 2 502 62 HOH HOH . L 5 HOH A 3 503 40 HOH HOH . L 5 HOH A 4 504 9 HOH HOH . L 5 HOH A 5 505 21 HOH HOH . L 5 HOH A 6 506 43 HOH HOH . L 5 HOH A 7 507 30 HOH HOH . L 5 HOH A 8 508 70 HOH HOH . L 5 HOH A 9 509 3 HOH HOH . L 5 HOH A 10 510 41 HOH HOH . L 5 HOH A 11 511 7 HOH HOH . L 5 HOH A 12 512 23 HOH HOH . L 5 HOH A 13 513 29 HOH HOH . L 5 HOH A 14 514 36 HOH HOH . L 5 HOH A 15 515 15 HOH HOH . L 5 HOH A 16 516 42 HOH HOH . L 5 HOH A 17 517 56 HOH HOH . L 5 HOH A 18 518 66 HOH HOH . L 5 HOH A 19 519 8 HOH HOH . L 5 HOH A 20 520 25 HOH HOH . L 5 HOH A 21 521 27 HOH HOH . L 5 HOH A 22 522 50 HOH HOH . L 5 HOH A 23 523 32 HOH HOH . L 5 HOH A 24 524 52 HOH HOH . L 5 HOH A 25 525 33 HOH HOH . L 5 HOH A 26 526 35 HOH HOH . L 5 HOH A 27 527 53 HOH HOH . L 5 HOH A 28 528 26 HOH HOH . L 5 HOH A 29 529 11 HOH HOH . L 5 HOH A 30 530 2 HOH HOH . L 5 HOH A 31 531 19 HOH HOH . L 5 HOH A 32 532 13 HOH HOH . L 5 HOH A 33 533 14 HOH HOH . L 5 HOH A 34 534 37 HOH HOH . L 5 HOH A 35 535 4 HOH HOH . L 5 HOH A 36 536 1 HOH HOH . L 5 HOH A 37 537 28 HOH HOH . L 5 HOH A 38 538 67 HOH HOH . L 5 HOH A 39 539 44 HOH HOH . L 5 HOH A 40 540 16 HOH HOH . L 5 HOH A 41 541 48 HOH HOH . L 5 HOH A 42 542 5 HOH HOH . L 5 HOH A 43 543 31 HOH HOH . L 5 HOH A 44 544 24 HOH HOH . L 5 HOH A 45 545 38 HOH HOH . L 5 HOH A 46 546 49 HOH HOH . L 5 HOH A 47 547 20 HOH HOH . L 5 HOH A 48 548 47 HOH HOH . L 5 HOH A 49 549 12 HOH HOH . L 5 HOH A 50 550 18 HOH HOH . L 5 HOH A 51 551 39 HOH HOH . L 5 HOH A 52 552 17 HOH HOH . L 5 HOH A 53 553 60 HOH HOH . L 5 HOH A 54 554 54 HOH HOH . L 5 HOH A 55 555 72 HOH HOH . L 5 HOH A 56 556 22 HOH HOH . L 5 HOH A 57 557 68 HOH HOH . L 5 HOH A 58 558 55 HOH HOH . L 5 HOH A 59 559 65 HOH HOH . L 5 HOH A 60 560 51 HOH HOH . L 5 HOH A 61 561 10 HOH HOH . L 5 HOH A 62 562 58 HOH HOH . L 5 HOH A 63 563 6 HOH HOH . L 5 HOH A 64 564 69 HOH HOH . L 5 HOH A 65 565 57 HOH HOH . L 5 HOH A 66 566 34 HOH HOH . L 5 HOH A 67 567 64 HOH HOH . L 5 HOH A 68 568 71 HOH HOH . L 5 HOH A 69 569 59 HOH HOH . L 5 HOH A 70 570 46 HOH HOH . L 5 HOH A 71 571 45 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 BOG . . . F 2 126.175 38.651 -16.4 1 119.66 ? C1 BOG 405 A 1 HETATM 2 O O1 BOG . . . F 2 126.806 37.896 -15.383 1 108.87 ? O1 BOG 405 A 1 HETATM 3 C C2 BOG . . . F 2 127.195 39.568 -17.08 1 125.74 ? C2 BOG 405 A 1 HETATM 4 O O2 BOG . . . F 2 127.763 40.494 -16.149 1 120.48 ? O2 BOG 405 A 1 HETATM 5 C C3 BOG . . . F 2 126.538 40.359 -18.212 1 125.48 ? C3 BOG 405 A 1 HETATM 6 O O3 BOG . . . F 2 127.537 41.016 -18.985 1 123.21 ? O3 BOG 405 A 1 HETATM 7 C C4 BOG . . . F 2 125.679 39.481 -19.119 1 130.26 ? C4 BOG 405 A 1 HETATM 8 O O4 BOG . . . F 2 124.869 40.301 -19.955 1 129.87 ? O4 BOG 405 A 1 HETATM 9 C C5 BOG . . . F 2 124.756 38.589 -18.294 1 131.02 ? C5 BOG 405 A 1 HETATM 10 O O5 BOG . . . F 2 125.532 37.827 -17.355 1 123.25 ? O5 BOG 405 A 1 HETATM 11 C C6 BOG . . . F 2 123.973 37.606 -19.137 1 139.7 ? C6 BOG 405 A 1 HETATM 12 O O6 BOG . . . F 2 123.089 38.267 -20.039 1 140.28 ? O6 BOG 405 A 1 HETATM 13 C C1' BOG . . . F 2 128.043 37.29 -15.762 1 104.68 ? C1' BOG 405 A 1 HETATM 14 C C2' BOG . . . F 2 129.173 37.785 -14.881 1 93.93 ? C2' BOG 405 A 1 HETATM 15 C C3' BOG . . . F 2 129.096 37.391 -13.417 1 88.02 ? C3' BOG 405 A 1 HETATM 16 C C4' BOG . . . F 2 130.445 37.54 -12.703 1 91.04 ? C4' BOG 405 A 1 HETATM 17 C C5' BOG . . . F 2 130.363 37.83 -11.205 1 89.07 ? C5' BOG 405 A 1 HETATM 18 C C6' BOG . . . F 2 130.588 36.616 -10.316 1 91.51 ? C6' BOG 405 A 1 HETATM 19 C C7' BOG . . . F 2 130.302 36.873 -8.841 1 89.6 ? C7' BOG 405 A 1 HETATM 20 C C8' BOG . . . F 2 130.062 35.597 -8.051 1 89.5 ? C8' BOG 405 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #