data_8YFY # _model_server_result.job_id kEqjFwRDL7ellns46-JOIw _model_server_result.datetime_utc '2025-02-05 09:00:26' _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 8yfy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 8YFY # _exptl.entry_id 8YFY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 292.369 _entity.id 2 _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 90 _cell.entry_id 8YFY _cell.length_a 58.096 _cell.length_b 71.817 _cell.length_c 137.017 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8YFY _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 3_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 8YFY _atom_sites.fract_transf_matrix[1][1] 0.017213 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013924 _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] 0.007298 _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 9999 BOG BOG . C 3 HOH A 1 501 216 HOH HOH . C 3 HOH A 2 502 164 HOH HOH . C 3 HOH A 3 503 4 HOH HOH . C 3 HOH A 4 504 241 HOH HOH . C 3 HOH A 5 505 129 HOH HOH . C 3 HOH A 6 506 242 HOH HOH . C 3 HOH A 7 507 89 HOH HOH . C 3 HOH A 8 508 56 HOH HOH . C 3 HOH A 9 509 222 HOH HOH . C 3 HOH A 10 510 69 HOH HOH . C 3 HOH A 11 511 66 HOH HOH . C 3 HOH A 12 512 256 HOH HOH . C 3 HOH A 13 513 123 HOH HOH . C 3 HOH A 14 514 196 HOH HOH . C 3 HOH A 15 515 98 HOH HOH . C 3 HOH A 16 516 185 HOH HOH . C 3 HOH A 17 517 138 HOH HOH . C 3 HOH A 18 518 67 HOH HOH . C 3 HOH A 19 519 179 HOH HOH . C 3 HOH A 20 520 207 HOH HOH . C 3 HOH A 21 521 46 HOH HOH . C 3 HOH A 22 522 79 HOH HOH . C 3 HOH A 23 523 212 HOH HOH . C 3 HOH A 24 524 116 HOH HOH . C 3 HOH A 25 525 34 HOH HOH . C 3 HOH A 26 526 156 HOH HOH . C 3 HOH A 27 527 194 HOH HOH . C 3 HOH A 28 528 217 HOH HOH . C 3 HOH A 29 529 83 HOH HOH . C 3 HOH A 30 530 205 HOH HOH . C 3 HOH A 31 531 190 HOH HOH . C 3 HOH A 32 532 189 HOH HOH . C 3 HOH A 33 533 236 HOH HOH . C 3 HOH A 34 534 33 HOH HOH . C 3 HOH A 35 535 161 HOH HOH . C 3 HOH A 36 536 146 HOH HOH . C 3 HOH A 37 537 163 HOH HOH . C 3 HOH A 38 538 11 HOH HOH . C 3 HOH A 39 539 32 HOH HOH . C 3 HOH A 40 540 118 HOH HOH . C 3 HOH A 41 541 16 HOH HOH . C 3 HOH A 42 542 3 HOH HOH . C 3 HOH A 43 543 254 HOH HOH . C 3 HOH A 44 544 108 HOH HOH . C 3 HOH A 45 545 140 HOH HOH . C 3 HOH A 46 546 31 HOH HOH . C 3 HOH A 47 547 54 HOH HOH . C 3 HOH A 48 548 53 HOH HOH . C 3 HOH A 49 549 117 HOH HOH . C 3 HOH A 50 550 62 HOH HOH . C 3 HOH A 51 551 24 HOH HOH . C 3 HOH A 52 552 183 HOH HOH . C 3 HOH A 53 553 84 HOH HOH . C 3 HOH A 54 554 121 HOH HOH . C 3 HOH A 55 555 86 HOH HOH . C 3 HOH A 56 556 12 HOH HOH . C 3 HOH A 57 557 51 HOH HOH . C 3 HOH A 58 558 135 HOH HOH . C 3 HOH A 59 559 221 HOH HOH . C 3 HOH A 60 560 14 HOH HOH . C 3 HOH A 61 561 133 HOH HOH . C 3 HOH A 62 562 80 HOH HOH . C 3 HOH A 63 563 153 HOH HOH . C 3 HOH A 64 564 176 HOH HOH . C 3 HOH A 65 565 44 HOH HOH . C 3 HOH A 66 566 181 HOH HOH . C 3 HOH A 67 567 78 HOH HOH . C 3 HOH A 68 568 188 HOH HOH . C 3 HOH A 69 569 113 HOH HOH . C 3 HOH A 70 570 249 HOH HOH . C 3 HOH A 71 571 6 HOH HOH . C 3 HOH A 72 572 125 HOH HOH . C 3 HOH A 73 573 64 HOH HOH . C 3 HOH A 74 574 139 HOH HOH . C 3 HOH A 75 575 230 HOH HOH . C 3 HOH A 76 576 258 HOH HOH . C 3 HOH A 77 577 170 HOH HOH . C 3 HOH A 78 578 257 HOH HOH . C 3 HOH A 79 579 192 HOH HOH . C 3 HOH A 80 580 100 HOH HOH . C 3 HOH A 81 581 63 HOH HOH . C 3 HOH A 82 582 218 HOH HOH . C 3 HOH A 83 583 42 HOH HOH . C 3 HOH A 84 584 81 HOH HOH . C 3 HOH A 85 585 96 HOH HOH . C 3 HOH A 86 586 199 HOH HOH . C 3 HOH A 87 587 238 HOH HOH . C 3 HOH A 88 588 9 HOH HOH . C 3 HOH A 89 589 17 HOH HOH . C 3 HOH A 90 590 38 HOH HOH . C 3 HOH A 91 591 104 HOH HOH . C 3 HOH A 92 592 213 HOH HOH . C 3 HOH A 93 593 74 HOH HOH . C 3 HOH A 94 594 23 HOH HOH . C 3 HOH A 95 595 36 HOH HOH . C 3 HOH A 96 596 157 HOH HOH . C 3 HOH A 97 597 91 HOH HOH . C 3 HOH A 98 598 90 HOH HOH . C 3 HOH A 99 599 5 HOH HOH . C 3 HOH A 100 600 137 HOH HOH . C 3 HOH A 101 601 225 HOH HOH . C 3 HOH A 102 602 93 HOH HOH . C 3 HOH A 103 603 39 HOH HOH . C 3 HOH A 104 604 259 HOH HOH . C 3 HOH A 105 605 120 HOH HOH . C 3 HOH A 106 606 19 HOH HOH . C 3 HOH A 107 607 208 HOH HOH . C 3 HOH A 108 608 210 HOH HOH . C 3 HOH A 109 609 26 HOH HOH . C 3 HOH A 110 610 21 HOH HOH . C 3 HOH A 111 611 48 HOH HOH . C 3 HOH A 112 612 239 HOH HOH . C 3 HOH A 113 613 1 HOH HOH . C 3 HOH A 114 614 95 HOH HOH . C 3 HOH A 115 615 15 HOH HOH . C 3 HOH A 116 616 52 HOH HOH . C 3 HOH A 117 617 8 HOH HOH . C 3 HOH A 118 618 27 HOH HOH . C 3 HOH A 119 619 127 HOH HOH . C 3 HOH A 120 620 20 HOH HOH . C 3 HOH A 121 621 124 HOH HOH . C 3 HOH A 122 622 219 HOH HOH . C 3 HOH A 123 623 72 HOH HOH . C 3 HOH A 124 624 10 HOH HOH . C 3 HOH A 125 625 246 HOH HOH . C 3 HOH A 126 626 128 HOH HOH . C 3 HOH A 127 627 30 HOH HOH . C 3 HOH A 128 628 130 HOH HOH . C 3 HOH A 129 629 260 HOH HOH . C 3 HOH A 130 630 22 HOH HOH . C 3 HOH A 131 631 2 HOH HOH . C 3 HOH A 132 632 103 HOH HOH . C 3 HOH A 133 633 182 HOH HOH . C 3 HOH A 134 634 94 HOH HOH . C 3 HOH A 135 635 204 HOH HOH . C 3 HOH A 136 636 59 HOH HOH . C 3 HOH A 137 637 43 HOH HOH . C 3 HOH A 138 638 65 HOH HOH . C 3 HOH A 139 639 7 HOH HOH . C 3 HOH A 140 640 141 HOH HOH . C 3 HOH A 141 641 224 HOH HOH . C 3 HOH A 142 642 85 HOH HOH . C 3 HOH A 143 643 167 HOH HOH . C 3 HOH A 144 644 13 HOH HOH . C 3 HOH A 145 645 28 HOH HOH . C 3 HOH A 146 646 162 HOH HOH . C 3 HOH A 147 647 71 HOH HOH . C 3 HOH A 148 648 220 HOH HOH . C 3 HOH A 149 649 37 HOH HOH . C 3 HOH A 150 650 122 HOH HOH . C 3 HOH A 151 651 47 HOH HOH . C 3 HOH A 152 652 41 HOH HOH . C 3 HOH A 153 653 29 HOH HOH . C 3 HOH A 154 654 171 HOH HOH . C 3 HOH A 155 655 70 HOH HOH . C 3 HOH A 156 656 76 HOH HOH . C 3 HOH A 157 657 214 HOH HOH . C 3 HOH A 158 658 206 HOH HOH . C 3 HOH A 159 659 215 HOH HOH . C 3 HOH A 160 660 40 HOH HOH . C 3 HOH A 161 661 106 HOH HOH . C 3 HOH A 162 662 145 HOH HOH . C 3 HOH A 163 663 131 HOH HOH . C 3 HOH A 164 664 111 HOH HOH . C 3 HOH A 165 665 172 HOH HOH . C 3 HOH A 166 666 243 HOH HOH . C 3 HOH A 167 667 45 HOH HOH . C 3 HOH A 168 668 101 HOH HOH . C 3 HOH A 169 669 143 HOH HOH . C 3 HOH A 170 670 60 HOH HOH . C 3 HOH A 171 671 61 HOH HOH . C 3 HOH A 172 672 73 HOH HOH . C 3 HOH A 173 673 88 HOH HOH . C 3 HOH A 174 674 178 HOH HOH . C 3 HOH A 175 675 58 HOH HOH . C 3 HOH A 176 676 231 HOH HOH . C 3 HOH A 177 677 35 HOH HOH . C 3 HOH A 178 678 244 HOH HOH . C 3 HOH A 179 679 112 HOH HOH . C 3 HOH A 180 680 75 HOH HOH . C 3 HOH A 181 681 87 HOH HOH . C 3 HOH A 182 682 160 HOH HOH . C 3 HOH A 183 683 247 HOH HOH . C 3 HOH A 184 684 107 HOH HOH . C 3 HOH A 185 685 200 HOH HOH . C 3 HOH A 186 686 110 HOH HOH . C 3 HOH A 187 687 77 HOH HOH . C 3 HOH A 188 688 92 HOH HOH . C 3 HOH A 189 689 97 HOH HOH . C 3 HOH A 190 690 57 HOH HOH . C 3 HOH A 191 691 119 HOH HOH . C 3 HOH A 192 692 173 HOH HOH . C 3 HOH A 193 693 50 HOH HOH . C 3 HOH A 194 694 114 HOH HOH . C 3 HOH A 195 695 18 HOH HOH . C 3 HOH A 196 696 82 HOH HOH . C 3 HOH A 197 697 191 HOH HOH . C 3 HOH A 198 698 148 HOH HOH . C 3 HOH A 199 699 68 HOH HOH . C 3 HOH A 200 700 55 HOH HOH . C 3 HOH A 201 701 151 HOH HOH . C 3 HOH A 202 702 99 HOH HOH . C 3 HOH A 203 703 175 HOH HOH . C 3 HOH A 204 704 248 HOH HOH . C 3 HOH A 205 705 144 HOH HOH . C 3 HOH A 206 706 226 HOH HOH . C 3 HOH A 207 707 154 HOH HOH . C 3 HOH A 208 708 136 HOH HOH . C 3 HOH A 209 709 102 HOH HOH . C 3 HOH A 210 710 109 HOH HOH . C 3 HOH A 211 711 158 HOH HOH . C 3 HOH A 212 712 235 HOH HOH . C 3 HOH A 213 713 233 HOH HOH . C 3 HOH A 214 714 150 HOH HOH . C 3 HOH A 215 715 159 HOH HOH . C 3 HOH A 216 716 177 HOH HOH . C 3 HOH A 217 717 240 HOH HOH . C 3 HOH A 218 718 184 HOH HOH . C 3 HOH A 219 719 237 HOH HOH . C 3 HOH A 220 720 142 HOH HOH . C 3 HOH A 221 721 250 HOH HOH . C 3 HOH A 222 722 152 HOH HOH . C 3 HOH A 223 723 149 HOH HOH . C 3 HOH A 224 724 174 HOH HOH . C 3 HOH A 225 725 126 HOH HOH . C 3 HOH A 226 726 201 HOH HOH . C 3 HOH A 227 727 223 HOH HOH . C 3 HOH A 228 728 147 HOH HOH . C 3 HOH A 229 729 166 HOH HOH . C 3 HOH A 230 730 232 HOH HOH . C 3 HOH A 231 731 227 HOH HOH . C 3 HOH A 232 732 105 HOH HOH . C 3 HOH A 233 733 197 HOH HOH . C 3 HOH A 234 734 115 HOH HOH . C 3 HOH A 235 735 155 HOH HOH . C 3 HOH A 236 736 187 HOH HOH . C 3 HOH A 237 737 132 HOH HOH . C 3 HOH A 238 738 211 HOH HOH . C 3 HOH A 239 739 49 HOH HOH . C 3 HOH A 240 740 252 HOH HOH . C 3 HOH A 241 741 209 HOH HOH . C 3 HOH A 242 742 234 HOH HOH . C 3 HOH A 243 743 165 HOH HOH . C 3 HOH A 244 744 134 HOH HOH . C 3 HOH A 245 745 180 HOH HOH . C 3 HOH A 246 746 169 HOH HOH . C 3 HOH A 247 747 195 HOH HOH . C 3 HOH A 248 748 228 HOH HOH . C 3 HOH A 249 749 203 HOH HOH . C 3 HOH A 250 750 251 HOH HOH . C 3 HOH A 251 751 193 HOH HOH . C 3 HOH A 252 752 198 HOH HOH . C 3 HOH A 253 753 255 HOH HOH . C 3 HOH A 254 754 25 HOH HOH . C 3 HOH A 255 755 168 HOH HOH . C 3 HOH A 256 756 202 HOH HOH . C 3 HOH A 257 757 229 HOH HOH . C 3 HOH A 258 758 245 HOH HOH . C 3 HOH A 259 759 253 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 8.83 12.272 2.968 1 27.92 ? C1 BOG 401 A 1 HETATM 2 O O1 BOG . . . B 2 8.739 13.22 4.03 1 25.33 ? O1 BOG 401 A 1 HETATM 3 C C2 BOG . . . B 2 10.069 12.517 2.135 1 28.35 ? C2 BOG 401 A 1 HETATM 4 O O2 BOG . . . B 2 9.894 13.719 1.397 1 27.99 ? O2 BOG 401 A 1 HETATM 5 C C3 BOG . . . B 2 10.601 11.348 1.312 1 30.29 ? C3 BOG 401 A 1 HETATM 6 O O3 BOG . . . B 2 12.008 11.465 1.198 1 33.89 ? O3 BOG 401 A 1 HETATM 7 C C4 BOG . . . B 2 10.176 9.935 1.747 1 30.42 ? C4 BOG 401 A 1 HETATM 8 O O4 BOG . . . B 2 10.042 9.04 0.653 1 30.95 ? O4 BOG 401 A 1 HETATM 9 C C5 BOG . . . B 2 8.93 9.792 2.627 1 30.11 ? C5 BOG 401 A 1 HETATM 10 O O5 BOG . . . B 2 8.513 10.946 3.364 1 28.52 ? O5 BOG 401 A 1 HETATM 11 C C6 BOG . . . B 2 8.869 8.485 3.445 1 29.9 ? C6 BOG 401 A 1 HETATM 12 O O6 BOG . . . B 2 10.052 8.237 4.173 1 31.15 ? O6 BOG 401 A 1 HETATM 13 C C1' BOG . . . B 2 7.401 13.31 4.507 1 24.33 ? C1' BOG 401 A 1 HETATM 14 C C2' BOG . . . B 2 7.254 14.623 5.256 1 22.91 ? C2' BOG 401 A 1 HETATM 15 C C3' BOG . . . B 2 8.165 14.62 6.473 1 21.49 ? C3' BOG 401 A 1 HETATM 16 C C4' BOG . . . B 2 7.774 15.714 7.457 1 22.58 ? C4' BOG 401 A 1 HETATM 17 C C5' BOG . . . B 2 8.823 15.867 8.552 1 22.63 ? C5' BOG 401 A 1 HETATM 18 C C6' BOG . . . B 2 8.564 17.128 9.367 1 22.7 ? C6' BOG 401 A 1 HETATM 19 C C7' BOG . . . B 2 9.604 17.315 10.45 1 23.19 ? C7' BOG 401 A 1 HETATM 20 C C8' BOG . . . B 2 9.631 18.728 10.989 1 23.51 ? C8' BOG 401 A 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 346 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #