data_5YIB # _model_server_result.job_id W09F4lNMNUuC_nu5r4M0QA _model_server_result.datetime_utc '2024-11-08 13:30:18' _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 5yib # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":407}' # _entry.id 5YIB # _exptl.entry_id 5YIB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 2 _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 5YIB _cell.length_a 106.25 _cell.length_b 106.25 _cell.length_c 70.85 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YIB _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # _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,H,I,J,K _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 H N N ? 4 I 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 disulf ? disulf1 A SG CYS 46 A CYS 49 1_555 A SG CYS 51 A CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf2 A SG CYS 248 A CYS 251 1_555 A SG CYS 284 A CYS 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? # _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' # _atom_sites.entry_id 5YIB _atom_sites.fract_transf_matrix[1][1] 0.009412 _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] 0.009412 _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] 0.014114 _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 8VC A 1 401 2 8VC 743 . C 3 GOL A 1 402 1 GOL GOL . D 3 GOL A 1 403 3 GOL GOL . E 3 GOL A 1 404 4 GOL GOL . F 3 GOL A 1 405 6 GOL GOL . G 3 GOL A 1 406 7 GOL GOL . H 4 EDO A 1 407 1 EDO EDO . I 4 EDO A 1 408 2 EDO EDO . J 5 CPS A 1 409 1 CPS CPS . K 6 HOH A 1 501 101 HOH HOH . K 6 HOH A 2 502 31 HOH HOH . K 6 HOH A 3 503 45 HOH HOH . K 6 HOH A 4 504 55 HOH HOH . K 6 HOH A 5 505 100 HOH HOH . K 6 HOH A 6 506 98 HOH HOH . K 6 HOH A 7 507 120 HOH HOH . K 6 HOH A 8 508 103 HOH HOH . K 6 HOH A 9 509 8 HOH HOH . K 6 HOH A 10 510 20 HOH HOH . K 6 HOH A 11 511 67 HOH HOH . K 6 HOH A 12 512 51 HOH HOH . K 6 HOH A 13 513 113 HOH HOH . K 6 HOH A 14 514 35 HOH HOH . K 6 HOH A 15 515 48 HOH HOH . K 6 HOH A 16 516 6 HOH HOH . K 6 HOH A 17 517 34 HOH HOH . K 6 HOH A 18 518 66 HOH HOH . K 6 HOH A 19 519 96 HOH HOH . K 6 HOH A 20 520 26 HOH HOH . K 6 HOH A 21 521 30 HOH HOH . K 6 HOH A 22 522 15 HOH HOH . K 6 HOH A 23 523 33 HOH HOH . K 6 HOH A 24 524 52 HOH HOH . K 6 HOH A 25 525 11 HOH HOH . K 6 HOH A 26 526 105 HOH HOH . K 6 HOH A 27 527 12 HOH HOH . K 6 HOH A 28 528 54 HOH HOH . K 6 HOH A 29 529 97 HOH HOH . K 6 HOH A 30 530 102 HOH HOH . K 6 HOH A 31 531 64 HOH HOH . K 6 HOH A 32 532 17 HOH HOH . K 6 HOH A 33 533 43 HOH HOH . K 6 HOH A 34 534 42 HOH HOH . K 6 HOH A 35 535 108 HOH HOH . K 6 HOH A 36 536 19 HOH HOH . K 6 HOH A 37 537 7 HOH HOH . K 6 HOH A 38 538 111 HOH HOH . K 6 HOH A 39 539 13 HOH HOH . K 6 HOH A 40 540 122 HOH HOH . K 6 HOH A 41 541 53 HOH HOH . K 6 HOH A 42 542 121 HOH HOH . K 6 HOH A 43 543 41 HOH HOH . K 6 HOH A 44 544 4 HOH HOH . K 6 HOH A 45 545 65 HOH HOH . K 6 HOH A 46 546 78 HOH HOH . K 6 HOH A 47 547 5 HOH HOH . K 6 HOH A 48 548 24 HOH HOH . K 6 HOH A 49 549 18 HOH HOH . K 6 HOH A 50 550 29 HOH HOH . K 6 HOH A 51 551 73 HOH HOH . K 6 HOH A 52 552 124 HOH HOH . K 6 HOH A 53 553 36 HOH HOH . K 6 HOH A 54 554 10 HOH HOH . K 6 HOH A 55 555 2 HOH HOH . K 6 HOH A 56 556 14 HOH HOH . K 6 HOH A 57 557 123 HOH HOH . K 6 HOH A 58 558 115 HOH HOH . K 6 HOH A 59 559 86 HOH HOH . K 6 HOH A 60 560 38 HOH HOH . K 6 HOH A 61 561 25 HOH HOH . K 6 HOH A 62 562 79 HOH HOH . K 6 HOH A 63 563 77 HOH HOH . K 6 HOH A 64 564 47 HOH HOH . K 6 HOH A 65 565 40 HOH HOH . K 6 HOH A 66 566 21 HOH HOH . K 6 HOH A 67 567 99 HOH HOH . K 6 HOH A 68 568 9 HOH HOH . K 6 HOH A 69 569 137 HOH HOH . K 6 HOH A 70 570 60 HOH HOH . K 6 HOH A 71 571 95 HOH HOH . K 6 HOH A 72 572 39 HOH HOH . K 6 HOH A 73 573 82 HOH HOH . K 6 HOH A 74 574 76 HOH HOH . K 6 HOH A 75 575 118 HOH HOH . K 6 HOH A 76 576 125 HOH HOH . K 6 HOH A 77 577 112 HOH HOH . K 6 HOH A 78 578 16 HOH HOH . K 6 HOH A 79 579 50 HOH HOH . K 6 HOH A 80 580 136 HOH HOH . K 6 HOH A 81 581 68 HOH HOH . K 6 HOH A 82 582 28 HOH HOH . K 6 HOH A 83 583 27 HOH HOH . K 6 HOH A 84 584 72 HOH HOH . K 6 HOH A 85 585 22 HOH HOH . K 6 HOH A 86 586 32 HOH HOH . K 6 HOH A 87 587 109 HOH HOH . K 6 HOH A 88 588 135 HOH HOH . K 6 HOH A 89 589 114 HOH HOH . K 6 HOH A 90 590 37 HOH HOH . K 6 HOH A 91 591 107 HOH HOH . K 6 HOH A 92 592 88 HOH HOH . K 6 HOH A 93 593 69 HOH HOH . K 6 HOH A 94 594 44 HOH HOH . K 6 HOH A 95 595 133 HOH HOH . K 6 HOH A 96 596 58 HOH HOH . K 6 HOH A 97 597 62 HOH HOH . K 6 HOH A 98 598 74 HOH HOH . K 6 HOH A 99 599 23 HOH HOH . K 6 HOH A 100 600 132 HOH HOH . K 6 HOH A 101 601 1 HOH HOH . K 6 HOH A 102 602 93 HOH HOH . K 6 HOH A 103 603 89 HOH HOH . K 6 HOH A 104 604 3 HOH HOH . K 6 HOH A 105 605 110 HOH HOH . K 6 HOH A 106 606 63 HOH HOH . K 6 HOH A 107 607 57 HOH HOH . K 6 HOH A 108 608 134 HOH HOH . K 6 HOH A 109 609 116 HOH HOH . K 6 HOH A 110 610 71 HOH HOH . K 6 HOH A 111 611 131 HOH HOH . K 6 HOH A 112 612 119 HOH HOH . K 6 HOH A 113 613 80 HOH HOH . K 6 HOH A 114 614 128 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 . . . H 4 17.526 -28.794 -29.576 1 54.01 ? C1 EDO 407 A 1 HETATM 2 O O1 EDO . . . H 4 16.279 -28.827 -30.274 1 56.98 ? O1 EDO 407 A 1 HETATM 3 C C2 EDO . . . H 4 17.527 -27.61 -28.639 1 52.64 ? C2 EDO 407 A 1 HETATM 4 O O2 EDO . . . H 4 18.433 -27.798 -27.546 1 46.78 ? O2 EDO 407 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 349 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 4 #