data_8EN9 # _model_server_result.job_id oGggcn0VvdXwAVfypltV4w _model_server_result.datetime_utc '2024-11-04 23:12:02' _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 8en9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 8EN9 # _exptl.entry_id 8EN9 _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 5 _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 8EN9 _cell.length_a 95.399 _cell.length_b 95.399 _cell.length_c 136.128 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8EN9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall 'R 3' _symmetry.space_group_name_H-M 'H 3' # _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 _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_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 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 # 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 metalc ? metalc1 I NA NA . A NA 408 1_555 J O HOH . A HOH 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.157 ? metalc ? metalc2 I NA NA . A NA 408 1_555 J O HOH . A HOH 504 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.157 ? metalc ? metalc3 I NA NA . A NA 408 1_555 J O HOH . A HOH 548 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc4 I NA NA . A NA 408 1_555 J O HOH . A HOH 548 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc5 I NA NA . A NA 408 1_555 J O HOH . A HOH 554 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.031 ? metalc ? metalc6 I NA NA . A NA 408 1_555 J O HOH . A HOH 554 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.031 ? # _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 8EN9 _atom_sites.fract_transf_matrix[1][1] 0.010482 _atom_sites.fract_transf_matrix[1][2] 0.006052 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012104 _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] 0.007346 _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 OG . C 2 BOG A 1 402 2 BOG OG . D 2 BOG A 1 403 3 BOG OG . E 2 BOG A 1 404 5 BOG OG . F 2 BOG A 1 405 6 BOG OG . G 3 CL A 1 406 2 CL CL . H 3 CL A 1 407 3 CL CL . I 4 NA A 1 408 1 NA NA . J 5 HOH A 1 501 8 HOH HOH . J 5 HOH A 2 502 24 HOH HOH . J 5 HOH A 3 503 33 HOH HOH . J 5 HOH A 4 504 14 HOH HOH . J 5 HOH A 5 505 9 HOH HOH . J 5 HOH A 6 506 6 HOH HOH . J 5 HOH A 7 507 3 HOH HOH . J 5 HOH A 8 508 47 HOH HOH . J 5 HOH A 9 509 45 HOH HOH . J 5 HOH A 10 510 17 HOH HOH . J 5 HOH A 11 511 52 HOH HOH . J 5 HOH A 12 512 31 HOH HOH . J 5 HOH A 13 513 19 HOH HOH . J 5 HOH A 14 514 28 HOH HOH . J 5 HOH A 15 515 55 HOH HOH . J 5 HOH A 16 516 25 HOH HOH . J 5 HOH A 17 517 7 HOH HOH . J 5 HOH A 18 518 43 HOH HOH . J 5 HOH A 19 519 1 HOH HOH . J 5 HOH A 20 520 15 HOH HOH . J 5 HOH A 21 521 5 HOH HOH . J 5 HOH A 22 522 20 HOH HOH . J 5 HOH A 23 523 2 HOH HOH . J 5 HOH A 24 524 41 HOH HOH . J 5 HOH A 25 525 16 HOH HOH . J 5 HOH A 26 526 23 HOH HOH . J 5 HOH A 27 527 13 HOH HOH . J 5 HOH A 28 528 11 HOH HOH . J 5 HOH A 29 529 40 HOH HOH . J 5 HOH A 30 530 22 HOH HOH . J 5 HOH A 31 531 56 HOH HOH . J 5 HOH A 32 532 39 HOH HOH . J 5 HOH A 33 533 44 HOH HOH . J 5 HOH A 34 534 35 HOH HOH . J 5 HOH A 35 535 51 HOH HOH . J 5 HOH A 36 536 10 HOH HOH . J 5 HOH A 37 537 42 HOH HOH . J 5 HOH A 38 538 54 HOH HOH . J 5 HOH A 39 539 48 HOH HOH . J 5 HOH A 40 540 50 HOH HOH . J 5 HOH A 41 541 4 HOH HOH . J 5 HOH A 42 542 21 HOH HOH . J 5 HOH A 43 543 34 HOH HOH . J 5 HOH A 44 544 46 HOH HOH . J 5 HOH A 45 545 30 HOH HOH . J 5 HOH A 46 546 59 HOH HOH . J 5 HOH A 47 547 37 HOH HOH . J 5 HOH A 48 548 29 HOH HOH . J 5 HOH A 49 549 38 HOH HOH . J 5 HOH A 50 550 53 HOH HOH . J 5 HOH A 51 551 27 HOH HOH . J 5 HOH A 52 552 36 HOH HOH . J 5 HOH A 53 553 58 HOH HOH . J 5 HOH A 54 554 12 HOH HOH . J 5 HOH A 55 555 32 HOH HOH . J 5 HOH A 56 556 18 HOH HOH . J 5 HOH A 57 557 26 HOH HOH . J 5 HOH A 58 558 49 HOH HOH . J 5 HOH A 59 559 57 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 . . . B 2 2.456 -2.175 67.278 1 71.36 ? C1 BOG 401 A 1 HETATM 2 O O1 BOG . . . B 2 2.318 -2.339 65.919 1 62.79 ? O1 BOG 401 A 1 HETATM 3 C C2 BOG . . . B 2 1.437 -3.103 67.959 1 77.63 ? C2 BOG 401 A 1 HETATM 4 O O2 BOG . . . B 2 0.101 -2.606 67.763 1 82.86 ? O2 BOG 401 A 1 HETATM 5 C C3 BOG . . . B 2 1.681 -3.228 69.422 1 87.72 ? C3 BOG 401 A 1 HETATM 6 O O3 BOG . . . B 2 0.729 -4.192 69.986 1 101.43 ? O3 BOG 401 A 1 HETATM 7 C C4 BOG . . . B 2 3.062 -3.662 69.712 1 90.22 ? C4 BOG 401 A 1 HETATM 8 O O4 BOG . . . B 2 3.256 -3.667 71.147 1 103.92 ? O4 BOG 401 A 1 HETATM 9 C C5 BOG . . . B 2 4.098 -2.742 69.059 1 85.31 ? C5 BOG 401 A 1 HETATM 10 O O5 BOG . . . B 2 3.845 -2.507 67.606 1 77.42 ? O5 BOG 401 A 1 HETATM 11 C C6 BOG . . . B 2 5.445 -3.372 69.214 1 76.81 ? C6 BOG 401 A 1 HETATM 12 O O6 BOG . . . B 2 6.247 -2.558 70.028 1 70.79 ? O6 BOG 401 A 1 HETATM 13 C C1' BOG . . . B 2 2.192 -1.197 65.13 1 48.31 ? C1' BOG 401 A 1 HETATM 14 C C2' BOG . . . B 2 2.953 -1.5 63.843 1 39.62 ? C2' BOG 401 A 1 HETATM 15 C C3' BOG . . . B 2 2.171 -1.118 62.599 1 33.22 ? C3' BOG 401 A 1 HETATM 16 C C4' BOG . . . B 2 3.064 -0.805 61.396 1 32.12 ? C4' BOG 401 A 1 HETATM 17 C C5' BOG . . . B 2 2.244 -0.526 60.133 1 29.63 ? C5' BOG 401 A 1 HETATM 18 C C6' BOG . . . B 2 3.046 -0.772 58.859 1 29.14 ? C6' BOG 401 A 1 HETATM 19 C C7' BOG . . . B 2 2.23 -0.511 57.605 1 31.91 ? C7' BOG 401 A 1 HETATM 20 C C8' BOG . . . B 2 3.074 -0.271 56.347 1 32.64 ? C8' BOG 401 A 1 HETATM 21 H H1 BOG . . . B 2 2.254 -1.157 67.588 1 85.63 ? H1 BOG 401 A 1 HETATM 22 H H2 BOG . . . B 2 1.514 -4.077 67.491 1 93.16 ? H2 BOG 401 A 1 HETATM 23 H HO2 BOG . . . B 2 0.088 -2.027 67.017 1 99.44 ? HO2 BOG 401 A 1 HETATM 24 H H3 BOG . . . B 2 1.516 -2.268 69.894 1 105.26 ? H3 BOG 401 A 1 HETATM 25 H HO3 BOG . . . B 2 1.165 -4.725 70.629 1 121.71 ? HO3 BOG 401 A 1 HETATM 26 H H4 BOG . . . B 2 3.208 -4.667 69.336 1 108.27 ? H4 BOG 401 A 1 HETATM 27 H HO4 BOG . . . B 2 2.607 -3.118 71.561 1 124.71 ? HO4 BOG 401 A 1 HETATM 28 H H5 BOG . . . B 2 4.072 -1.784 69.564 1 102.37 ? H5 BOG 401 A 1 HETATM 29 H H61 BOG . . . B 2 5.336 -4.348 69.674 1 92.17 ? H61 BOG 401 A 1 HETATM 30 H H62 BOG . . . B 2 5.908 -3.476 68.238 1 92.17 ? H62 BOG 401 A 1 HETATM 31 H HO6 BOG . . . B 2 6.308 -1.697 69.648 1 84.95 ? HO6 BOG 401 A 1 HETATM 32 H "H1'1" BOG . . . B 2 1.147 -1.001 64.914 1 57.97 ? "H1'1" BOG 401 A 1 HETATM 33 H "H1'2" BOG . . . B 2 2.628 -0.34 65.634 1 57.97 ? "H1'2" BOG 401 A 1 HETATM 34 H "H2'1" BOG . . . B 2 3.888 -0.949 63.852 1 47.55 ? "H2'1" BOG 401 A 1 HETATM 35 H "H2'2" BOG . . . B 2 3.171 -2.562 63.807 1 47.55 ? "H2'2" BOG 401 A 1 HETATM 36 H "H3'1" BOG . . . B 2 1.571 -0.242 62.822 1 39.87 ? "H3'1" BOG 401 A 1 HETATM 37 H "H3'2" BOG . . . B 2 1.512 -1.939 62.337 1 39.87 ? "H3'2" BOG 401 A 1 HETATM 38 H "H4'1" BOG . . . B 2 3.67 0.065 61.623 1 38.54 ? "H4'1" BOG 401 A 1 HETATM 39 H "H4'2" BOG . . . B 2 3.718 -1.651 61.213 1 38.54 ? "H4'2" BOG 401 A 1 HETATM 40 H "H5'1" BOG . . . B 2 1.372 -1.171 60.13 1 35.56 ? "H5'1" BOG 401 A 1 HETATM 41 H "H5'2" BOG . . . B 2 1.917 0.508 60.148 1 35.56 ? "H5'2" BOG 401 A 1 HETATM 42 H "H6'1" BOG . . . B 2 3.384 -1.803 58.85 1 34.97 ? "H6'1" BOG 401 A 1 HETATM 43 H "H6'2" BOG . . . B 2 3.912 -0.118 58.857 1 34.97 ? "H6'2" BOG 401 A 1 HETATM 44 H "H7'1" BOG . . . B 2 1.61 0.364 57.774 1 38.3 ? "H7'1" BOG 401 A 1 HETATM 45 H "H7'2" BOG . . . B 2 1.587 -1.368 57.429 1 38.3 ? "H7'2" BOG 401 A 1 HETATM 46 H "H8'1" BOG . . . B 2 2.453 -0.397 55.464 1 39.16 ? "H8'1" BOG 401 A 1 HETATM 47 H "H8'2" BOG . . . B 2 3.892 -0.985 56.318 1 39.16 ? "H8'2" BOG 401 A 1 HETATM 48 H "H8'3" BOG . . . B 2 3.475 0.738 56.366 1 39.16 ? "H8'3" BOG 401 A 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 48 #