data_5KL5 # _model_server_result.job_id zG9JBHj3bl6RyBPUchhWsQ _model_server_result.datetime_utc '2024-12-21 17:49:28' _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 5kl5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":504}' # _entry.id 5KL5 # _exptl.entry_id 5KL5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 5 _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 5KL5 _cell.length_a 67.493 _cell.length_b 77.211 _cell.length_c 35.794 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KL5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _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,H,I,J _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 5 _struct_asym.id G _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 covale ? covale1 B O3' DG 8 B DG 8 1_555 B P 1CC 9 B 1CC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.606 ? covale ? covale2 B O3' 1CC 9 B 1CC 9 1_555 B P DG 10 B DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.607 ? covale ? covale3 C O3' DA 2 C DA 2 1_555 C P 5CM 3 C 5CM 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.606 ? covale ? covale4 C O3' 5CM 3 C 5CM 3 1_555 C P DG 4 C DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.607 ? metalc ? metalc1 A SG CYS 11 A CYS 355 1_555 D ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc2 A SG CYS 16 A CYS 360 1_555 D ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc3 A NE2 HIS 29 A HIS 373 1_555 D ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? metalc ? metalc4 A NE2 HIS 33 A HIS 377 1_555 D ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc5 A SG CYS 41 A CYS 385 1_555 E ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? metalc ? metalc6 A SG CYS 44 A CYS 388 1_555 E ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc7 A NE2 HIS 57 A HIS 401 1_555 E ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc8 A NE2 HIS 61 A HIS 405 1_555 E ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? metalc ? metalc9 A SG CYS 69 A CYS 413 1_555 F ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc10 A SG CYS 74 A CYS 418 1_555 F ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc11 A NE2 HIS 87 A HIS 431 1_555 F ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc12 A NE2 HIS 91 A HIS 435 1_555 F ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? hydrog WATSON-CRICK hydrog1 B N1 DG 2 B DG 2 1_555 C N3 DC 11 C DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N2 DG 2 B DG 2 1_555 C O2 DC 11 C DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B O6 DG 2 B DG 2 1_555 C N4 DC 11 C DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N3 DC 3 B DC 3 1_555 C N1 DG 10 C DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N4 DC 3 B DC 3 1_555 C O6 DG 10 C DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B O2 DC 3 B DC 3 1_555 C N2 DG 10 C DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B N1 DG 4 B DG 4 1_555 C N3 DC 9 C DC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N2 DG 4 B DG 4 1_555 C O2 DC 9 C DC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B O6 DG 4 B DG 4 1_555 C N4 DC 9 C DC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B N3 DT 5 B DT 5 1_555 C N1 DA 8 C DA 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B O4 DT 5 B DT 5 1_555 C N6 DA 8 C DA 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 B N1 DG 6 B DG 6 1_555 C N3 DC 7 C DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 B N2 DG 6 B DG 6 1_555 C O2 DC 7 C DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 B O6 DG 6 B DG 6 1_555 C N4 DC 7 C DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 B N1 DG 7 B DG 7 1_555 C N3 DC 6 C DC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 B N2 DG 7 B DG 7 1_555 C O2 DC 6 C DC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 B O6 DG 7 B DG 7 1_555 C N4 DC 6 C DC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 B N1 DG 8 B DG 8 1_555 C N3 DC 5 C DC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 B N2 DG 8 B DG 8 1_555 C O2 DC 5 C DC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 B O6 DG 8 B DG 8 1_555 C N4 DC 5 C DC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 B N3 1CC 9 B 1CC 9 1_555 C N1 DG 4 C DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 B N4 1CC 9 B 1CC 9 1_555 C O6 DG 4 C DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 B O2 1CC 9 B 1CC 9 1_555 C N2 DG 4 C DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 B N1 DG 10 B DG 10 1_555 C N3 5CM 3 C 5CM 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 B N2 DG 10 B DG 10 1_555 C O2 5CM 3 C 5CM 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 B O6 DG 10 B DG 10 1_555 C N4 5CM 3 C 5CM 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 B N3 DT 11 B DT 11 1_555 C N1 DA 2 C DA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 B O4 DT 11 B DT 11 1_555 C N6 DA 2 C DA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 308 n n C1 C2 EDO sing 309 n n C1 H11 EDO sing 310 n n C1 H12 EDO sing 311 n n O1 HO1 EDO sing 312 n n C2 O2 EDO sing 313 n n C2 H21 EDO sing 314 n n C2 H22 EDO sing 315 n n O2 HO2 EDO sing 316 n n # _atom_sites.entry_id 5KL5 _atom_sites.fract_transf_matrix[1][1] 0.014816 _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] 0.012952 _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] 0.027938 _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 D 4 ZN A 1 501 1 ZN ZN . E 4 ZN A 1 502 2 ZN ZN . F 4 ZN A 1 503 3 ZN ZN . G 5 EDO A 1 504 1 EDO EDO . H 6 HOH A 1 601 47 HOH HOH . H 6 HOH A 2 602 13 HOH HOH . H 6 HOH A 3 603 35 HOH HOH . H 6 HOH A 4 604 31 HOH HOH . H 6 HOH A 5 605 10 HOH HOH . H 6 HOH A 6 606 17 HOH HOH . H 6 HOH A 7 607 22 HOH HOH . H 6 HOH A 8 608 29 HOH HOH . H 6 HOH A 9 609 27 HOH HOH . H 6 HOH A 10 610 11 HOH HOH . H 6 HOH A 11 611 28 HOH HOH . H 6 HOH A 12 612 14 HOH HOH . H 6 HOH A 13 613 3 HOH HOH . H 6 HOH A 14 614 42 HOH HOH . H 6 HOH A 15 615 5 HOH HOH . H 6 HOH A 16 616 57 HOH HOH . H 6 HOH A 17 617 33 HOH HOH . H 6 HOH A 18 618 39 HOH HOH . H 6 HOH A 19 619 90 HOH HOH . H 6 HOH A 20 620 34 HOH HOH . H 6 HOH A 21 621 38 HOH HOH . H 6 HOH A 22 622 36 HOH HOH . H 6 HOH A 23 623 44 HOH HOH . H 6 HOH A 24 624 15 HOH HOH . H 6 HOH A 25 625 69 HOH HOH . H 6 HOH A 26 626 7 HOH HOH . H 6 HOH A 27 627 43 HOH HOH . H 6 HOH A 28 628 51 HOH HOH . H 6 HOH A 29 629 25 HOH HOH . H 6 HOH A 30 630 4 HOH HOH . H 6 HOH A 31 631 91 HOH HOH . H 6 HOH A 32 632 48 HOH HOH . H 6 HOH A 33 633 40 HOH HOH . H 6 HOH A 34 634 53 HOH HOH . H 6 HOH A 35 635 62 HOH HOH . H 6 HOH A 36 636 52 HOH HOH . H 6 HOH A 37 637 68 HOH HOH . H 6 HOH A 38 638 81 HOH HOH . H 6 HOH A 39 639 80 HOH HOH . H 6 HOH A 40 640 73 HOH HOH . H 6 HOH A 41 641 65 HOH HOH . H 6 HOH A 42 642 79 HOH HOH . H 6 HOH A 43 643 50 HOH HOH . H 6 HOH A 44 644 30 HOH HOH . H 6 HOH A 45 645 86 HOH HOH . H 6 HOH A 46 646 37 HOH HOH . H 6 HOH A 47 647 70 HOH HOH . H 6 HOH A 48 648 76 HOH HOH . H 6 HOH A 49 649 77 HOH HOH . H 6 HOH A 50 650 32 HOH HOH . I 6 HOH B 1 101 20 HOH HOH . I 6 HOH B 2 102 41 HOH HOH . I 6 HOH B 3 103 45 HOH HOH . I 6 HOH B 4 104 71 HOH HOH . I 6 HOH B 5 105 46 HOH HOH . I 6 HOH B 6 106 1 HOH HOH . I 6 HOH B 7 107 16 HOH HOH . I 6 HOH B 8 108 49 HOH HOH . I 6 HOH B 9 109 19 HOH HOH . I 6 HOH B 10 110 8 HOH HOH . I 6 HOH B 11 111 60 HOH HOH . I 6 HOH B 12 112 2 HOH HOH . I 6 HOH B 13 113 9 HOH HOH . I 6 HOH B 14 114 21 HOH HOH . I 6 HOH B 15 115 26 HOH HOH . I 6 HOH B 16 116 55 HOH HOH . I 6 HOH B 17 117 67 HOH HOH . I 6 HOH B 18 118 23 HOH HOH . I 6 HOH B 19 119 75 HOH HOH . I 6 HOH B 20 120 72 HOH HOH . J 6 HOH C 1 101 64 HOH HOH . J 6 HOH C 2 102 12 HOH HOH . J 6 HOH C 3 103 66 HOH HOH . J 6 HOH C 4 104 84 HOH HOH . J 6 HOH C 5 105 24 HOH HOH . J 6 HOH C 6 106 54 HOH HOH . J 6 HOH C 7 107 59 HOH HOH . J 6 HOH C 8 108 18 HOH HOH . J 6 HOH C 9 109 6 HOH HOH . J 6 HOH C 10 110 83 HOH HOH . J 6 HOH C 11 111 63 HOH HOH . J 6 HOH C 12 112 56 HOH HOH . J 6 HOH C 13 113 61 HOH HOH . J 6 HOH C 14 114 74 HOH HOH . J 6 HOH C 15 115 85 HOH HOH . J 6 HOH C 16 116 78 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 . . . G 5 60.796 23.136 12.96 1 32.52 ? C1 EDO 504 A 1 HETATM 2 O O1 EDO . . . G 5 60.873 22.244 14.078 1 29.25 ? O1 EDO 504 A 1 HETATM 3 C C2 EDO . . . G 5 61.94 24.141 13.018 1 32.87 ? C2 EDO 504 A 1 HETATM 4 O O2 EDO . . . G 5 63.188 23.47 12.807 1 27.55 ? O2 EDO 504 A 1 HETATM 5 H H11 EDO . . . G 5 60.853 22.566 12.031 1 39.06 ? H11 EDO 504 A 1 HETATM 6 H H12 EDO . . . G 5 59.841 23.665 12.977 1 39.06 ? H12 EDO 504 A 1 HETATM 7 H HO1 EDO . . . G 5 60.145 21.61 14.036 1 35.13 ? HO1 EDO 504 A 1 HETATM 8 H H21 EDO . . . G 5 61.798 24.905 12.25 1 39.48 ? H21 EDO 504 A 1 HETATM 9 H H22 EDO . . . G 5 61.948 24.635 13.992 1 39.48 ? H22 EDO 504 A 1 HETATM 10 H HO2 EDO . . . G 5 63.91 24.113 12.844 1 33.1 ? HO2 EDO 504 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 10 #