data_4XU4 # _model_server_result.job_id w86m-4mWRlU_8rwAIitwIw _model_server_result.datetime_utc '2024-11-05 06:42:47' _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 4xu4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":304}' # _entry.id 4XU4 # _exptl.entry_id 4XU4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 306.395 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'nonyl beta-D-glucopyranoside' _entity.pdbx_number_of_molecules 3 _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 4XU4 _cell.length_a 85.498 _cell.length_b 85.498 _cell.length_c 125.851 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XU4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _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 _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 1 170.996 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 85.498 148.08688 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 E N N # _chem_comp.formula 'C15 H30 O6' _chem_comp.formula_weight 306.395 _chem_comp.id BNG _chem_comp.mon_nstd_flag n _chem_comp.name 'nonyl beta-D-glucopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms 'Beta-NONYLGLUCOSIDE;nonyl beta-D-glucoside;nonyl D-glucoside;nonyl 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 C2 BNG sing 54 n n C1 O1 BNG sing 55 n n C1 O5 BNG sing 56 n n C1 H1 BNG sing 57 n n C2 C3 BNG sing 58 n n C2 O2 BNG sing 59 n n C2 H2 BNG sing 60 n n C3 C4 BNG sing 61 n n C3 O3 BNG sing 62 n n C3 H3 BNG sing 63 n n C4 C5 BNG sing 64 n n C4 O4 BNG sing 65 n n C4 H4 BNG sing 66 n n C5 C6 BNG sing 67 n n C5 O5 BNG sing 68 n n C5 H5 BNG sing 69 n n C6 O6 BNG sing 70 n n C6 H61 BNG sing 71 n n C6 H62 BNG sing 72 n n C1' C2' BNG sing 73 n n C1' O1 BNG sing 74 n n C1' "H1'1" BNG sing 75 n n C1' "H1'2" BNG sing 76 n n C2' C3' BNG sing 77 n n C2' "H2'1" BNG sing 78 n n C2' "H2'2" BNG sing 79 n n C3' C4' BNG sing 80 n n C3' "H3'1" BNG sing 81 n n C3' "H3'2" BNG sing 82 n n C4' C5' BNG sing 83 n n C4' "H4'1" BNG sing 84 n n C4' "H4'2" BNG sing 85 n n C5' C6' BNG sing 86 n n C5' "H5'1" BNG sing 87 n n C5' "H5'2" BNG sing 88 n n C6' C7' BNG sing 89 n n C6' "H6'1" BNG sing 90 n n C6' "H6'2" BNG sing 91 n n C7' C8' BNG sing 92 n n C7' "H7'1" BNG sing 93 n n C7' "H7'2" BNG sing 94 n n C8' C9' BNG sing 95 n n C8' "H8'1" BNG sing 96 n n C8' "H8'2" BNG sing 97 n n C9' "H9'1" BNG sing 98 n n C9' "H9'2" BNG sing 99 n n C9' "H9'3" BNG sing 100 n n O2 HO2 BNG sing 101 n n O3 HO3 BNG sing 102 n n O4 HO4 BNG sing 103 n n O6 HO6 BNG sing 104 n n # _pdbx_chem_comp_identifier.comp_id BNG _pdbx_chem_comp_identifier.identifier b-nonylglucoside _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 4XU4 _atom_sites.fract_transf_matrix[1][1] 0.011696 _atom_sites.fract_transf_matrix[1][2] 0.006753 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013506 _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] 0.007946 _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 BNG A 1 301 1 BNG BNG . C 2 BNG A 1 302 2 BNG BNG . D 3 DDQ A 1 303 1 DDQ DDQ . E 2 BNG A 1 304 1 BNG BNG . F 3 DDQ A 1 305 1 DDQ DDQ . G 4 HOH A 1 401 77 HOH HOH . G 4 HOH A 2 402 39 HOH HOH . G 4 HOH A 3 403 79 HOH HOH . G 4 HOH A 4 404 41 HOH HOH . G 4 HOH A 5 405 5 HOH HOH . G 4 HOH A 6 406 35 HOH HOH . G 4 HOH A 7 407 97 HOH HOH . G 4 HOH A 8 408 16 HOH HOH . G 4 HOH A 9 409 20 HOH HOH . G 4 HOH A 10 410 26 HOH HOH . G 4 HOH A 11 411 31 HOH HOH . G 4 HOH A 12 412 46 HOH HOH . G 4 HOH A 13 413 47 HOH HOH . G 4 HOH A 14 414 28 HOH HOH . G 4 HOH A 15 415 38 HOH HOH . G 4 HOH A 16 416 56 HOH HOH . G 4 HOH A 17 417 80 HOH HOH . G 4 HOH A 18 418 1 HOH HOH . G 4 HOH A 19 419 113 HOH HOH . G 4 HOH A 20 420 101 HOH HOH . G 4 HOH A 21 421 82 HOH HOH . G 4 HOH A 22 422 62 HOH HOH . G 4 HOH A 23 423 43 HOH HOH . G 4 HOH A 24 424 84 HOH HOH . G 4 HOH A 25 425 90 HOH HOH . G 4 HOH A 26 426 120 HOH HOH . G 4 HOH A 27 427 2 HOH HOH . G 4 HOH A 28 428 3 HOH HOH . G 4 HOH A 29 429 4 HOH HOH . G 4 HOH A 30 430 6 HOH HOH . G 4 HOH A 31 431 7 HOH HOH . G 4 HOH A 32 432 8 HOH HOH . G 4 HOH A 33 433 9 HOH HOH . G 4 HOH A 34 434 10 HOH HOH . G 4 HOH A 35 435 11 HOH HOH . G 4 HOH A 36 436 12 HOH HOH . G 4 HOH A 37 437 13 HOH HOH . G 4 HOH A 38 438 14 HOH HOH . G 4 HOH A 39 439 15 HOH HOH . G 4 HOH A 40 440 17 HOH HOH . G 4 HOH A 41 441 18 HOH HOH . G 4 HOH A 42 442 19 HOH HOH . G 4 HOH A 43 443 21 HOH HOH . G 4 HOH A 44 444 22 HOH HOH . G 4 HOH A 45 445 23 HOH HOH . G 4 HOH A 46 446 27 HOH HOH . G 4 HOH A 47 447 29 HOH HOH . G 4 HOH A 48 448 32 HOH HOH . G 4 HOH A 49 449 33 HOH HOH . G 4 HOH A 50 450 34 HOH HOH . G 4 HOH A 51 451 36 HOH HOH . G 4 HOH A 52 452 37 HOH HOH . G 4 HOH A 53 453 40 HOH HOH . G 4 HOH A 54 454 42 HOH HOH . G 4 HOH A 55 455 44 HOH HOH . G 4 HOH A 56 456 45 HOH HOH . G 4 HOH A 57 457 48 HOH HOH . G 4 HOH A 58 458 49 HOH HOH . G 4 HOH A 59 459 50 HOH HOH . G 4 HOH A 60 460 51 HOH HOH . G 4 HOH A 61 461 52 HOH HOH . G 4 HOH A 62 462 53 HOH HOH . G 4 HOH A 63 463 54 HOH HOH . G 4 HOH A 64 464 55 HOH HOH . G 4 HOH A 65 465 57 HOH HOH . G 4 HOH A 66 466 58 HOH HOH . G 4 HOH A 67 467 59 HOH HOH . G 4 HOH A 68 468 60 HOH HOH . G 4 HOH A 69 469 61 HOH HOH . G 4 HOH A 70 470 64 HOH HOH . G 4 HOH A 71 471 65 HOH HOH . G 4 HOH A 72 472 66 HOH HOH . G 4 HOH A 73 473 67 HOH HOH . G 4 HOH A 74 474 68 HOH HOH . G 4 HOH A 75 475 69 HOH HOH . G 4 HOH A 76 476 70 HOH HOH . G 4 HOH A 77 477 71 HOH HOH . G 4 HOH A 78 478 72 HOH HOH . G 4 HOH A 79 479 73 HOH HOH . G 4 HOH A 80 480 74 HOH HOH . G 4 HOH A 81 481 75 HOH HOH . G 4 HOH A 82 482 76 HOH HOH . G 4 HOH A 83 483 78 HOH HOH . G 4 HOH A 84 484 81 HOH HOH . G 4 HOH A 85 485 83 HOH HOH . G 4 HOH A 86 486 85 HOH HOH . G 4 HOH A 87 487 100 HOH HOH . G 4 HOH A 88 488 102 HOH HOH . G 4 HOH A 89 489 103 HOH HOH . G 4 HOH A 90 490 106 HOH HOH . G 4 HOH A 91 491 108 HOH HOH . G 4 HOH A 92 492 110 HOH HOH . G 4 HOH A 93 493 111 HOH HOH . G 4 HOH A 94 494 114 HOH HOH . G 4 HOH A 95 495 116 HOH HOH . G 4 HOH A 96 496 117 HOH HOH . G 4 HOH A 97 497 121 HOH HOH . G 4 HOH A 98 498 122 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 BNG . . . E 2 84.667 54.782 3.944 1 73.15 ? C1 BNG 304 A 1 HETATM 2 C C2 BNG . . . E 2 83.761 53.821 4.699 1 74.66 ? C2 BNG 304 A 1 HETATM 3 C C3 BNG . . . E 2 84.057 53.98 6.179 1 77.25 ? C3 BNG 304 A 1 HETATM 4 C C4 BNG . . . E 2 85.508 53.591 6.42 1 80.42 ? C4 BNG 304 A 1 HETATM 5 C C5 BNG . . . E 2 86.456 54.362 5.505 1 80.08 ? C5 BNG 304 A 1 HETATM 6 C C6 BNG . . . E 2 87.829 53.706 5.571 1 82.76 ? C6 BNG 304 A 1 HETATM 7 C C1' BNG . . . E 2 85.404 55.551 1.903 1 68.14 ? C1' BNG 304 A 1 HETATM 8 C C2' BNG . . . E 2 85.336 55.266 0.418 1 64.66 ? C2' BNG 304 A 1 HETATM 9 C C3' BNG . . . E 2 83.935 55.561 -0.076 1 61.04 ? C3' BNG 304 A 1 HETATM 10 C C4' BNG . . . E 2 83.517 54.44 -1 1 60.75 ? C4' BNG 304 A 1 HETATM 11 C C5' BNG . . . E 2 83.962 54.715 -2.416 1 59.1 ? C5' BNG 304 A 1 HETATM 12 C C6' BNG . . . E 2 82.76 54.604 -3.337 1 56.78 ? C6' BNG 304 A 1 HETATM 13 C C7' BNG . . . E 2 82.787 53.29 -4.098 1 57.11 ? C7' BNG 304 A 1 HETATM 14 C C8' BNG . . . E 2 81.495 53.087 -4.877 1 57.16 ? C8' BNG 304 A 1 HETATM 15 C C9' BNG . . . E 2 81.71 52.097 -6.001 1 55.84 ? C9' BNG 304 A 1 HETATM 16 O O1 BNG . . . E 2 84.401 54.779 2.55 1 72.2 ? O1 BNG 304 A 1 HETATM 17 O O2 BNG . . . E 2 82.387 54.104 4.43 1 73.79 ? O2 BNG 304 A 1 HETATM 18 O O3 BNG . . . E 2 83.189 53.149 6.958 1 83.14 ? O3 BNG 304 A 1 HETATM 19 O O4 BNG . . . E 2 85.865 53.873 7.779 1 85.52 ? O4 BNG 304 A 1 HETATM 20 O O5 BNG . . . E 2 86.025 54.389 4.14 1 79.31 ? O5 BNG 304 A 1 HETATM 21 O O6 BNG . . . E 2 87.677 52.285 5.447 1 84.29 ? O6 BNG 304 A 1 # _model_server_stats.io_time_ms 73 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 21 #