data_5B5S # _model_server_result.job_id FY3DEVRvyG-3WvM-25IvUA _model_server_result.datetime_utc '2024-11-22 02:26:52' _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 5b5s # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 5B5S # _exptl.entry_id 5B5S _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 5B5S _cell.length_a 70.905 _cell.length_b 70.905 _cell.length_c 87.093 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5B5S _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 disulf ? disulf1 A SG CYS 16 A CYS 16 1_555 A SG CYS 47 A CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? metalc ? metalc1 A OD1 ASP 35 A ASP 35 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? metalc ? metalc2 A O PHE 36 A PHE 36 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc3 A OD1 ASP 54 A ASP 54 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc4 A OD2 ASP 54 A ASP 54 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? metalc ? metalc5 A OD2 ASP 56 A ASP 56 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? metalc ? metalc6 C CA CA . A CA 302 1_555 G O HOH . A HOH 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc7 C CA CA . A CA 302 1_555 G O HOH . A HOH 551 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? # _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 5B5S _atom_sites.fract_transf_matrix[1][1] 0.014103 _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] 0.014103 _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] 0.011482 _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 1 301 1 BOG BOG . C 3 CA A 1 302 1 CA CA . D 4 GOL A 1 303 1 GOL GOL . E 4 GOL A 1 304 2 GOL GOL . F 5 SO3 A 1 305 1 SO3 SO3 . G 6 HOH A 1 401 67 HOH HOH . G 6 HOH A 2 402 77 HOH HOH . G 6 HOH A 3 403 44 HOH HOH . G 6 HOH A 4 404 176 HOH HOH . G 6 HOH A 5 405 179 HOH HOH . G 6 HOH A 6 406 58 HOH HOH . G 6 HOH A 7 407 88 HOH HOH . G 6 HOH A 8 408 126 HOH HOH . G 6 HOH A 9 409 21 HOH HOH . G 6 HOH A 10 410 27 HOH HOH . G 6 HOH A 11 411 13 HOH HOH . G 6 HOH A 12 412 97 HOH HOH . G 6 HOH A 13 413 35 HOH HOH . G 6 HOH A 14 414 53 HOH HOH . G 6 HOH A 15 415 63 HOH HOH . G 6 HOH A 16 416 32 HOH HOH . G 6 HOH A 17 417 74 HOH HOH . G 6 HOH A 18 418 154 HOH HOH . G 6 HOH A 19 419 54 HOH HOH . G 6 HOH A 20 420 28 HOH HOH . G 6 HOH A 21 421 91 HOH HOH . G 6 HOH A 22 422 84 HOH HOH . G 6 HOH A 23 423 151 HOH HOH . G 6 HOH A 24 424 149 HOH HOH . G 6 HOH A 25 425 14 HOH HOH . G 6 HOH A 26 426 171 HOH HOH . G 6 HOH A 27 427 65 HOH HOH . G 6 HOH A 28 428 3 HOH HOH . G 6 HOH A 29 429 11 HOH HOH . G 6 HOH A 30 430 4 HOH HOH . G 6 HOH A 31 431 75 HOH HOH . G 6 HOH A 32 432 85 HOH HOH . G 6 HOH A 33 433 12 HOH HOH . G 6 HOH A 34 434 82 HOH HOH . G 6 HOH A 35 435 195 HOH HOH . G 6 HOH A 36 436 37 HOH HOH . G 6 HOH A 37 437 146 HOH HOH . G 6 HOH A 38 438 48 HOH HOH . G 6 HOH A 39 439 22 HOH HOH . G 6 HOH A 40 440 38 HOH HOH . G 6 HOH A 41 441 17 HOH HOH . G 6 HOH A 42 442 42 HOH HOH . G 6 HOH A 43 443 144 HOH HOH . G 6 HOH A 44 444 46 HOH HOH . G 6 HOH A 45 445 142 HOH HOH . G 6 HOH A 46 446 8 HOH HOH . G 6 HOH A 47 447 80 HOH HOH . G 6 HOH A 48 448 33 HOH HOH . G 6 HOH A 49 449 34 HOH HOH . G 6 HOH A 50 450 10 HOH HOH . G 6 HOH A 51 451 39 HOH HOH . G 6 HOH A 52 452 178 HOH HOH . G 6 HOH A 53 453 25 HOH HOH . G 6 HOH A 54 454 41 HOH HOH . G 6 HOH A 55 455 47 HOH HOH . G 6 HOH A 56 456 150 HOH HOH . G 6 HOH A 57 457 136 HOH HOH . G 6 HOH A 58 458 7 HOH HOH . G 6 HOH A 59 459 83 HOH HOH . G 6 HOH A 60 460 1 HOH HOH . G 6 HOH A 61 461 175 HOH HOH . G 6 HOH A 62 462 18 HOH HOH . G 6 HOH A 63 463 40 HOH HOH . G 6 HOH A 64 464 73 HOH HOH . G 6 HOH A 65 465 62 HOH HOH . G 6 HOH A 66 466 15 HOH HOH . G 6 HOH A 67 467 115 HOH HOH . G 6 HOH A 68 468 132 HOH HOH . G 6 HOH A 69 469 95 HOH HOH . G 6 HOH A 70 470 69 HOH HOH . G 6 HOH A 71 471 123 HOH HOH . G 6 HOH A 72 472 45 HOH HOH . G 6 HOH A 73 473 30 HOH HOH . G 6 HOH A 74 474 109 HOH HOH . G 6 HOH A 75 475 117 HOH HOH . G 6 HOH A 76 476 112 HOH HOH . G 6 HOH A 77 477 16 HOH HOH . G 6 HOH A 78 478 2 HOH HOH . G 6 HOH A 79 479 60 HOH HOH . G 6 HOH A 80 480 140 HOH HOH . G 6 HOH A 81 481 9 HOH HOH . G 6 HOH A 82 482 36 HOH HOH . G 6 HOH A 83 483 6 HOH HOH . G 6 HOH A 84 484 19 HOH HOH . G 6 HOH A 85 485 71 HOH HOH . G 6 HOH A 86 486 23 HOH HOH . G 6 HOH A 87 487 20 HOH HOH . G 6 HOH A 88 488 181 HOH HOH . G 6 HOH A 89 489 56 HOH HOH . G 6 HOH A 90 490 157 HOH HOH . G 6 HOH A 91 491 94 HOH HOH . G 6 HOH A 92 492 182 HOH HOH . G 6 HOH A 93 493 78 HOH HOH . G 6 HOH A 94 494 153 HOH HOH . G 6 HOH A 95 495 57 HOH HOH . G 6 HOH A 96 496 5 HOH HOH . G 6 HOH A 97 497 245 HOH HOH . G 6 HOH A 98 498 133 HOH HOH . G 6 HOH A 99 499 29 HOH HOH . G 6 HOH A 100 500 99 HOH HOH . G 6 HOH A 101 501 106 HOH HOH . G 6 HOH A 102 502 61 HOH HOH . G 6 HOH A 103 503 55 HOH HOH . G 6 HOH A 104 504 108 HOH HOH . G 6 HOH A 105 505 119 HOH HOH . G 6 HOH A 106 506 156 HOH HOH . G 6 HOH A 107 507 26 HOH HOH . G 6 HOH A 108 508 50 HOH HOH . G 6 HOH A 109 509 70 HOH HOH . G 6 HOH A 110 510 197 HOH HOH . G 6 HOH A 111 511 152 HOH HOH . G 6 HOH A 112 512 121 HOH HOH . G 6 HOH A 113 513 24 HOH HOH . G 6 HOH A 114 514 118 HOH HOH . G 6 HOH A 115 515 101 HOH HOH . G 6 HOH A 116 516 124 HOH HOH . G 6 HOH A 117 517 96 HOH HOH . G 6 HOH A 118 518 66 HOH HOH . G 6 HOH A 119 519 72 HOH HOH . G 6 HOH A 120 520 170 HOH HOH . G 6 HOH A 121 521 81 HOH HOH . G 6 HOH A 122 522 52 HOH HOH . G 6 HOH A 123 523 125 HOH HOH . G 6 HOH A 124 524 169 HOH HOH . G 6 HOH A 125 525 177 HOH HOH . G 6 HOH A 126 526 51 HOH HOH . G 6 HOH A 127 527 76 HOH HOH . G 6 HOH A 128 528 68 HOH HOH . G 6 HOH A 129 529 98 HOH HOH . G 6 HOH A 130 530 107 HOH HOH . G 6 HOH A 131 531 114 HOH HOH . G 6 HOH A 132 532 185 HOH HOH . G 6 HOH A 133 533 139 HOH HOH . G 6 HOH A 134 534 190 HOH HOH . G 6 HOH A 135 535 187 HOH HOH . G 6 HOH A 136 536 89 HOH HOH . G 6 HOH A 137 537 143 HOH HOH . G 6 HOH A 138 538 59 HOH HOH . G 6 HOH A 139 539 113 HOH HOH . G 6 HOH A 140 540 43 HOH HOH . G 6 HOH A 141 541 31 HOH HOH . G 6 HOH A 142 542 79 HOH HOH . G 6 HOH A 143 543 87 HOH HOH . G 6 HOH A 144 544 131 HOH HOH . G 6 HOH A 145 545 100 HOH HOH . G 6 HOH A 146 546 167 HOH HOH . G 6 HOH A 147 547 173 HOH HOH . G 6 HOH A 148 548 147 HOH HOH . G 6 HOH A 149 549 116 HOH HOH . G 6 HOH A 150 550 90 HOH HOH . G 6 HOH A 151 551 86 HOH HOH . G 6 HOH A 152 552 192 HOH HOH . G 6 HOH A 153 553 155 HOH HOH . G 6 HOH A 154 554 194 HOH HOH . G 6 HOH A 155 555 159 HOH HOH . G 6 HOH A 156 556 174 HOH HOH . G 6 HOH A 157 557 160 HOH HOH . G 6 HOH A 158 558 196 HOH HOH . G 6 HOH A 159 559 163 HOH HOH . G 6 HOH A 160 560 93 HOH HOH . G 6 HOH A 161 561 191 HOH HOH . G 6 HOH A 162 562 135 HOH HOH . G 6 HOH A 163 563 166 HOH HOH . G 6 HOH A 164 564 120 HOH HOH . G 6 HOH A 165 565 193 HOH HOH . G 6 HOH A 166 566 122 HOH HOH . G 6 HOH A 167 567 110 HOH HOH . G 6 HOH A 168 568 129 HOH HOH . G 6 HOH A 169 569 111 HOH HOH . G 6 HOH A 170 570 161 HOH HOH . G 6 HOH A 171 571 165 HOH HOH . G 6 HOH A 172 572 102 HOH HOH . G 6 HOH A 173 573 134 HOH HOH . G 6 HOH A 174 574 168 HOH HOH . G 6 HOH A 175 575 92 HOH HOH . G 6 HOH A 176 576 158 HOH HOH . G 6 HOH A 177 577 162 HOH HOH . G 6 HOH A 178 578 105 HOH HOH . G 6 HOH A 179 579 189 HOH HOH . G 6 HOH A 180 580 244 HOH HOH . G 6 HOH A 181 581 145 HOH HOH . G 6 HOH A 182 582 138 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 1.148 -7.083 30.088 1 19.84 ? C1 BOG 301 A 1 HETATM 2 O O1 BOG . . . B 2 2.405 -7.463 29.49 1 20.52 ? O1 BOG 301 A 1 HETATM 3 C C2 BOG . . . B 2 0.377 -8.388 30.441 1 18.35 ? C2 BOG 301 A 1 HETATM 4 O O2 BOG . . . B 2 0.147 -9.178 29.3 1 18.62 ? O2 BOG 301 A 1 HETATM 5 C C3 BOG . . . B 2 -0.878 -7.974 31.179 1 18.35 ? C3 BOG 301 A 1 HETATM 6 O O3 BOG . . . B 2 -1.516 -9.097 31.675 1 17.81 ? O3 BOG 301 A 1 HETATM 7 C C4 BOG . . . B 2 -0.648 -6.926 32.255 1 21.54 ? C4 BOG 301 A 1 HETATM 8 O O4 BOG . . . B 2 -1.944 -6.466 32.693 1 22.23 ? O4 BOG 301 A 1 HETATM 9 C C5 BOG . . . B 2 0.107 -5.731 31.733 1 22.35 ? C5 BOG 301 A 1 HETATM 10 O O5 BOG . . . B 2 1.329 -6.154 31.165 1 21.2 ? O5 BOG 301 A 1 HETATM 11 C C6 BOG . . . B 2 0.434 -4.711 32.828 1 21.4 ? C6 BOG 301 A 1 HETATM 12 O O6 BOG . . . B 2 1.139 -3.651 32.21 1 23.56 ? O6 BOG 301 A 1 HETATM 13 C C1' BOG . . . B 2 3.066 -6.482 28.734 1 20.34 ? C1' BOG 301 A 1 HETATM 14 C C2' BOG . . . B 2 4.047 -7.237 27.876 1 22.07 ? C2' BOG 301 A 1 HETATM 15 C C3' BOG . . . B 2 4.669 -6.267 26.894 1 19.32 ? C3' BOG 301 A 1 HETATM 16 C C4' BOG . . . B 2 5.602 -7.012 25.923 1 21.32 ? C4' BOG 301 A 1 HETATM 17 C C5' BOG . . . B 2 6.249 -5.909 25.084 1 25.24 ? C5' BOG 301 A 1 HETATM 18 C C6' BOG . . . B 2 7.312 -6.356 24.09 1 23.21 ? C6' BOG 301 A 1 HETATM 19 C C7' BOG . . . B 2 8.539 -6.984 24.692 1 30.31 ? C7' BOG 301 A 1 HETATM 20 C C8' BOG . . . B 2 9.37 -7.269 23.448 1 41.25 ? C8' BOG 301 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #