data_3D8D # _model_server_result.job_id JFS7hlnaPwVt0zYv7T6a3Q _model_server_result.datetime_utc '2024-12-07 17:19:11' _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 3d8d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":514}' # _entry.id 3D8D # _exptl.entry_id 3D8D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _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 3D8D _cell.length_a 43.756 _cell.length_b 79.574 _cell.length_c 83.974 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3D8D _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS monomeric 1 author_and_software_defined_assembly 1 PQS monomeric 1 author_and_software_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 PISA dimeric 2 software_defined_assembly 4 PISA dimeric 2 software_defined_assembly 5 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,J 1 1 B,G,H,I,K 2 1 B,G,H,I,K 3 1 A,C,D,E,F,J 3 2 B,G,H,I,K 4 1 A,C,D,E,F,J 4 3 B,G,H,I,K 5 1 A,C,D,E,F,J 5 4 # 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' 4_466 x-1/2,-y+3/2,-z+1 1 0 0 0 -1 0 0 0 -1 -21.878 119.361 83.974 3 'crystal symmetry operation' 2_565 -x+1/2,-y+1,z+1/2 -1 0 0 0 -1 0 0 0 1 21.878 79.574 41.987 4 'crystal symmetry operation' 3_545 -x,y-1/2,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 -39.787 41.987 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C2 H6 O2' _chem_comp.formula_weight 62.068 _chem_comp.id EDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-ETHANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ETHYLENE GLYCOL' # 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 EDO sing 83 n n C1 C2 EDO sing 84 n n C1 H11 EDO sing 85 n n C1 H12 EDO sing 86 n n O1 HO1 EDO sing 87 n n C2 O2 EDO sing 88 n n C2 H21 EDO sing 89 n n C2 H22 EDO sing 90 n n O2 HO2 EDO sing 91 n n # _atom_sites.entry_id 3D8D _atom_sites.fract_transf_matrix[1][1] 0.022854 _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] 0.012567 _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] 0.011908 _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 C 2 HG A 1 1 1 HG HG . D 2 HG A 1 5 5 HG HG . E 2 HG A 1 6 6 HG HG . F 3 EDO A 1 514 1 EDO EDO . G 2 HG B 1 2 2 HG HG . H 2 HG B 1 3 3 HG HG . I 2 HG B 1 4 4 HG HG . J 4 HOH A 1 515 2 HOH HOH . J 4 HOH A 2 516 5 HOH HOH . J 4 HOH A 3 517 7 HOH HOH . J 4 HOH A 4 518 9 HOH HOH . J 4 HOH A 5 519 10 HOH HOH . J 4 HOH A 6 520 16 HOH HOH . J 4 HOH A 7 521 17 HOH HOH . J 4 HOH A 8 522 22 HOH HOH . J 4 HOH A 9 523 24 HOH HOH . J 4 HOH A 10 524 28 HOH HOH . J 4 HOH A 11 525 29 HOH HOH . J 4 HOH A 12 526 30 HOH HOH . J 4 HOH A 13 527 31 HOH HOH . J 4 HOH A 14 528 33 HOH HOH . J 4 HOH A 15 529 34 HOH HOH . J 4 HOH A 16 530 35 HOH HOH . J 4 HOH A 17 531 38 HOH HOH . J 4 HOH A 18 532 39 HOH HOH . J 4 HOH A 19 533 41 HOH HOH . J 4 HOH A 20 534 42 HOH HOH . J 4 HOH A 21 535 43 HOH HOH . J 4 HOH A 22 536 44 HOH HOH . J 4 HOH A 23 537 47 HOH HOH . J 4 HOH A 24 538 48 HOH HOH . J 4 HOH A 25 539 49 HOH HOH . J 4 HOH A 26 540 57 HOH HOH . J 4 HOH A 27 541 59 HOH HOH . J 4 HOH A 28 542 61 HOH HOH . J 4 HOH A 29 543 63 HOH HOH . J 4 HOH A 30 544 64 HOH HOH . J 4 HOH A 31 545 65 HOH HOH . J 4 HOH A 32 546 66 HOH HOH . J 4 HOH A 33 547 67 HOH HOH . J 4 HOH A 34 548 70 HOH HOH . J 4 HOH A 35 549 72 HOH HOH . J 4 HOH A 36 550 73 HOH HOH . J 4 HOH A 37 551 74 HOH HOH . J 4 HOH A 38 552 76 HOH HOH . J 4 HOH A 39 553 77 HOH HOH . J 4 HOH A 40 554 78 HOH HOH . J 4 HOH A 41 555 79 HOH HOH . J 4 HOH A 42 556 81 HOH HOH . J 4 HOH A 43 557 83 HOH HOH . J 4 HOH A 44 558 86 HOH HOH . J 4 HOH A 45 559 87 HOH HOH . J 4 HOH A 46 560 88 HOH HOH . J 4 HOH A 47 561 90 HOH HOH . J 4 HOH A 48 562 91 HOH HOH . J 4 HOH A 49 563 93 HOH HOH . J 4 HOH A 50 564 96 HOH HOH . J 4 HOH A 51 565 97 HOH HOH . J 4 HOH A 52 566 101 HOH HOH . J 4 HOH A 53 567 102 HOH HOH . J 4 HOH A 54 568 107 HOH HOH . J 4 HOH A 55 569 108 HOH HOH . J 4 HOH A 56 570 109 HOH HOH . J 4 HOH A 57 571 110 HOH HOH . J 4 HOH A 58 572 111 HOH HOH . J 4 HOH A 59 573 114 HOH HOH . J 4 HOH A 60 574 119 HOH HOH . J 4 HOH A 61 575 120 HOH HOH . J 4 HOH A 62 576 122 HOH HOH . J 4 HOH A 63 577 124 HOH HOH . J 4 HOH A 64 578 126 HOH HOH . J 4 HOH A 65 579 129 HOH HOH . K 4 HOH B 1 514 1 HOH HOH . K 4 HOH B 2 515 3 HOH HOH . K 4 HOH B 3 516 4 HOH HOH . K 4 HOH B 4 517 6 HOH HOH . K 4 HOH B 5 518 8 HOH HOH . K 4 HOH B 6 519 11 HOH HOH . K 4 HOH B 7 520 12 HOH HOH . K 4 HOH B 8 521 13 HOH HOH . K 4 HOH B 9 522 14 HOH HOH . K 4 HOH B 10 523 15 HOH HOH . K 4 HOH B 11 524 18 HOH HOH . K 4 HOH B 12 525 19 HOH HOH . K 4 HOH B 13 526 20 HOH HOH . K 4 HOH B 14 527 21 HOH HOH . K 4 HOH B 15 528 23 HOH HOH . K 4 HOH B 16 529 25 HOH HOH . K 4 HOH B 17 530 26 HOH HOH . K 4 HOH B 18 531 27 HOH HOH . K 4 HOH B 19 532 32 HOH HOH . K 4 HOH B 20 533 36 HOH HOH . K 4 HOH B 21 534 37 HOH HOH . K 4 HOH B 22 535 40 HOH HOH . K 4 HOH B 23 536 45 HOH HOH . K 4 HOH B 24 537 46 HOH HOH . K 4 HOH B 25 538 50 HOH HOH . K 4 HOH B 26 539 51 HOH HOH . K 4 HOH B 27 540 52 HOH HOH . K 4 HOH B 28 541 53 HOH HOH . K 4 HOH B 29 542 54 HOH HOH . K 4 HOH B 30 543 55 HOH HOH . K 4 HOH B 31 544 56 HOH HOH . K 4 HOH B 32 545 58 HOH HOH . K 4 HOH B 33 546 60 HOH HOH . K 4 HOH B 34 547 62 HOH HOH . K 4 HOH B 35 548 68 HOH HOH . K 4 HOH B 36 549 69 HOH HOH . K 4 HOH B 37 550 71 HOH HOH . K 4 HOH B 38 551 75 HOH HOH . K 4 HOH B 39 552 80 HOH HOH . K 4 HOH B 40 553 82 HOH HOH . K 4 HOH B 41 554 84 HOH HOH . K 4 HOH B 42 555 85 HOH HOH . K 4 HOH B 43 556 89 HOH HOH . K 4 HOH B 44 557 92 HOH HOH . K 4 HOH B 45 558 94 HOH HOH . K 4 HOH B 46 559 95 HOH HOH . K 4 HOH B 47 560 98 HOH HOH . K 4 HOH B 48 561 99 HOH HOH . K 4 HOH B 49 562 100 HOH HOH . K 4 HOH B 50 563 103 HOH HOH . K 4 HOH B 51 564 104 HOH HOH . K 4 HOH B 52 565 105 HOH HOH . K 4 HOH B 53 566 106 HOH HOH . K 4 HOH B 54 567 112 HOH HOH . K 4 HOH B 55 568 113 HOH HOH . K 4 HOH B 56 569 115 HOH HOH . K 4 HOH B 57 570 116 HOH HOH . K 4 HOH B 58 571 117 HOH HOH . K 4 HOH B 59 572 118 HOH HOH . K 4 HOH B 60 573 121 HOH HOH . K 4 HOH B 61 574 123 HOH HOH . K 4 HOH B 62 575 125 HOH HOH . K 4 HOH B 63 576 127 HOH HOH . K 4 HOH B 64 577 128 HOH HOH . K 4 HOH B 65 578 130 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 EDO . . . F 3 -2.251 67.547 30.932 1 54.3 ? C1 EDO 514 A 1 HETATM 2 O O1 EDO . . . F 3 -1.151 67.047 31.718 1 53.25 ? O1 EDO 514 A 1 HETATM 3 C C2 EDO . . . F 3 -2.375 66.777 29.612 1 54.27 ? C2 EDO 514 A 1 HETATM 4 O O2 EDO . . . F 3 -2.134 65.366 29.77 1 52.21 ? O2 EDO 514 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 238 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 4 #