data_8EN9 # _model_server_result.job_id L4I4cSwtRLzqfLWL7aaGsA _model_server_result.datetime_utc '2024-11-04 23:15:59' _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":"D","auth_seq_id":403}' # _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 . . . D 2 18.3 35.658 67.023 1 87.72 ? C1 BOG 403 A 1 HETATM 2 O O1 BOG . . . D 2 17.075 35.985 66.475 1 83.32 ? O1 BOG 403 A 1 HETATM 3 C C2 BOG . . . D 2 18.528 36.497 68.291 1 91.33 ? C2 BOG 403 A 1 HETATM 4 O O2 BOG . . . D 2 19.654 36.024 69.046 1 85 ? O2 BOG 403 A 1 HETATM 5 C C3 BOG . . . D 2 17.281 36.399 69.107 1 88.5 ? C3 BOG 403 A 1 HETATM 6 O O3 BOG . . . D 2 16.212 37.187 68.473 1 81.6 ? O3 BOG 403 A 1 HETATM 7 C C4 BOG . . . D 2 16.789 35.002 69.213 1 80.52 ? C4 BOG 403 A 1 HETATM 8 O O4 BOG . . . D 2 16.469 34.714 70.592 1 89.38 ? O4 BOG 403 A 1 HETATM 9 C C5 BOG . . . D 2 17.813 33.963 68.753 1 72.3 ? C5 BOG 403 A 1 HETATM 10 O O5 BOG . . . D 2 18.312 34.223 67.366 1 83.62 ? O5 BOG 403 A 1 HETATM 11 C C6 BOG . . . D 2 17.188 32.615 68.769 1 64.99 ? C6 BOG 403 A 1 HETATM 12 O O6 BOG . . . D 2 16.843 32.264 67.454 1 57.06 ? O6 BOG 403 A 1 HETATM 13 C C1' BOG . . . D 2 17.098 36.948 65.461 1 75.34 ? C1' BOG 403 A 1 HETATM 14 C C2' BOG . . . D 2 15.687 37.061 64.872 1 63.29 ? C2' BOG 403 A 1 HETATM 15 C C3' BOG . . . D 2 15.74 37.027 63.346 1 65.39 ? C3' BOG 403 A 1 HETATM 16 C C4' BOG . . . D 2 14.392 37.169 62.632 1 66.48 ? C4' BOG 403 A 1 HETATM 17 C C5' BOG . . . D 2 14.607 37.093 61.117 1 64.74 ? C5' BOG 403 A 1 HETATM 18 C C6' BOG . . . D 2 13.496 36.377 60.349 1 61.48 ? C6' BOG 403 A 1 HETATM 19 C C7' BOG . . . D 2 14.011 35.618 59.121 1 60.33 ? C7' BOG 403 A 1 HETATM 20 C C8' BOG . . . D 2 14.51 36.52 57.988 1 51.38 ? C8' BOG 403 A 1 HETATM 21 H H1 BOG . . . D 2 19.064 35.876 66.286 1 105.26 ? H1 BOG 403 A 1 HETATM 22 H H2 BOG . . . D 2 18.777 37.52 68.039 1 109.59 ? H2 BOG 403 A 1 HETATM 23 H HO2 BOG . . . D 2 19.367 35.812 69.915 1 101.99 ? HO2 BOG 403 A 1 HETATM 24 H H3 BOG . . . D 2 17.499 36.795 70.091 1 106.2 ? H3 BOG 403 A 1 HETATM 25 H HO3 BOG . . . D 2 15.881 36.736 67.71 1 97.92 ? HO3 BOG 403 A 1 HETATM 26 H H4 BOG . . . D 2 15.902 34.923 68.596 1 96.63 ? H4 BOG 403 A 1 HETATM 27 H HO4 BOG . . . D 2 15.65 34.248 70.651 1 107.26 ? HO4 BOG 403 A 1 HETATM 28 H H5 BOG . . . D 2 18.646 33.989 69.444 1 86.76 ? H5 BOG 403 A 1 HETATM 29 H H61 BOG . . . D 2 17.892 31.891 69.166 1 77.99 ? H61 BOG 403 A 1 HETATM 30 H H62 BOG . . . D 2 16.296 32.634 69.387 1 77.99 ? H62 BOG 403 A 1 HETATM 31 H HO6 BOG . . . D 2 17.278 32.833 66.839 1 68.47 ? HO6 BOG 403 A 1 HETATM 32 H "H1'1" BOG . . . D 2 17.399 37.906 65.873 1 90.41 ? "H1'1" BOG 403 A 1 HETATM 33 H "H1'2" BOG . . . D 2 17.795 36.647 64.686 1 90.41 ? "H1'2" BOG 403 A 1 HETATM 34 H "H2'1" BOG . . . D 2 15.082 36.234 65.229 1 75.95 ? "H2'1" BOG 403 A 1 HETATM 35 H "H2'2" BOG . . . D 2 15.236 37.993 65.195 1 75.95 ? "H2'2" BOG 403 A 1 HETATM 36 H "H3'1" BOG . . . D 2 16.181 36.082 63.046 1 78.47 ? "H3'1" BOG 403 A 1 HETATM 37 H "H3'2" BOG . . . D 2 16.382 37.837 63.015 1 78.47 ? "H3'2" BOG 403 A 1 HETATM 38 H "H4'1" BOG . . . D 2 13.728 36.37 62.947 1 79.77 ? "H4'1" BOG 403 A 1 HETATM 39 H "H4'2" BOG . . . D 2 13.942 38.122 62.889 1 79.77 ? "H4'2" BOG 403 A 1 HETATM 40 H "H5'1" BOG . . . D 2 14.688 38.104 60.734 1 77.69 ? "H5'1" BOG 403 A 1 HETATM 41 H "H5'2" BOG . . . D 2 15.54 36.57 60.931 1 77.69 ? "H5'2" BOG 403 A 1 HETATM 42 H "H6'1" BOG . . . D 2 12.768 37.113 60.023 1 73.78 ? "H6'1" BOG 403 A 1 HETATM 43 H "H6'2" BOG . . . D 2 13.01 35.672 61.015 1 73.78 ? "H6'2" BOG 403 A 1 HETATM 44 H "H7'1" BOG . . . D 2 13.205 35.001 58.738 1 72.39 ? "H7'1" BOG 403 A 1 HETATM 45 H "H7'2" BOG . . . D 2 14.828 34.977 59.434 1 72.39 ? "H7'2" BOG 403 A 1 HETATM 46 H "H8'1" BOG . . . D 2 15.49 36.912 58.243 1 61.66 ? "H8'1" BOG 403 A 1 HETATM 47 H "H8'2" BOG . . . D 2 13.816 37.343 57.848 1 61.66 ? "H8'2" BOG 403 A 1 HETATM 48 H "H8'3" BOG . . . D 2 14.578 35.943 57.07 1 61.66 ? "H8'3" BOG 403 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 48 #