data_5UP8 # _model_server_result.job_id xclcBSndyUP6jXjUQfChXw _model_server_result.datetime_utc '2025-02-28 22:48:37' _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 5up8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":205}' # _entry.id 5UP8 # _exptl.entry_id 5UP8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 196.16 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N,N'-dihydroxybenzene-1,4-dicarboxamide" _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 5UP8 _cell.length_a 155.81 _cell.length_b 155.81 _cell.length_c 155.81 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5UP8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 211 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 4 3 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 24-meric _pdbx_struct_assembly.oligomeric_count 24 _pdbx_struct_assembly.details author_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 1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24 # 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_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 5 'crystal symmetry operation' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 6 'crystal symmetry operation' 6_555 z,-x,-y 0 0 1 -1 0 0 0 -1 0 0 0 0 7 'crystal symmetry operation' 7_555 -z,-x,y 0 0 -1 -1 0 0 0 1 0 0 0 0 8 'crystal symmetry operation' 8_555 -z,x,-y 0 0 -1 1 0 0 0 -1 0 0 0 0 9 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 10 'crystal symmetry operation' 10_555 -y,z,-x 0 -1 0 0 0 1 -1 0 0 0 0 0 11 'crystal symmetry operation' 11_555 y,-z,-x 0 1 0 0 0 -1 -1 0 0 0 0 0 12 'crystal symmetry operation' 12_555 -y,-z,x 0 -1 0 0 0 -1 1 0 0 0 0 0 13 'crystal symmetry operation' 13_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 14 'crystal symmetry operation' 14_555 -y,-x,-z 0 -1 0 -1 0 0 0 0 -1 0 0 0 15 'crystal symmetry operation' 15_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 16 'crystal symmetry operation' 16_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 17 'crystal symmetry operation' 17_555 x,z,-y 1 0 0 0 0 1 0 -1 0 0 0 0 18 'crystal symmetry operation' 18_555 -x,z,y -1 0 0 0 0 1 0 1 0 0 0 0 19 'crystal symmetry operation' 19_555 -x,-z,-y -1 0 0 0 0 -1 0 -1 0 0 0 0 20 'crystal symmetry operation' 20_555 x,-z,y 1 0 0 0 0 -1 0 1 0 0 0 0 21 'crystal symmetry operation' 21_555 z,y,-x 0 0 1 0 1 0 -1 0 0 0 0 0 22 'crystal symmetry operation' 22_555 z,-y,x 0 0 1 0 -1 0 1 0 0 0 0 0 23 'crystal symmetry operation' 23_555 -z,y,x 0 0 -1 0 1 0 1 0 0 0 0 0 24 'crystal symmetry operation' 24_555 -z,-y,-x 0 0 -1 0 -1 0 -1 0 0 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id F _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 metalc ? metalc1 A OE2 GLU 27 A GLU 27 1_555 B ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc2 A OE2 GLU 62 A GLU 62 1_555 B ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? metalc ? metalc3 A OE1 GLU 62 A GLU 62 1_555 C ZN ZN . A ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.808 ? metalc ? metalc4 A ND1 HIS 65 A HIS 65 1_555 B ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc5 A OE1 GLU 107 A GLU 107 1_555 C ZN ZN . A ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc6 A NE2 HIS 122 A HIS 122 1_555 D ZN ZN . A ZN 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc7 A NE2 HIS 122 A HIS 122 1_555 D ZN ZN . A ZN 203 7_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc8 A OD1 ASP 131 A ASP 131 1_555 E NA NA . A NA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc9 A OD1 ASP 131 A ASP 131 1_555 E NA NA . A NA 204 7_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc10 A OE2 GLU 134 A GLU 134 1_555 E NA NA . A NA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc11 A OE2 GLU 134 A GLU 134 1_555 E NA NA . A NA 204 7_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc12 B ZN ZN . A ZN 201 1_555 G O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? metalc ? metalc13 D ZN ZN . A ZN 203 1_555 F OAJ BYD . A BYD 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc14 D ZN ZN . A ZN 203 1_555 F OAH BYD . A BYD 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc15 D ZN ZN . A ZN 203 1_555 F OAJ BYD . A BYD 205 7_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc16 D ZN ZN . A ZN 203 1_555 F OAN BYD . A BYD 205 43_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc17 D ZN ZN . A ZN 203 1_555 F OAH BYD . A BYD 205 7_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc18 D ZN ZN . A ZN 203 1_555 F OAM BYD . A BYD 205 37_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? # _chem_comp.formula 'C8 H8 N2 O4' _chem_comp.formula_weight 196.16 _chem_comp.id BYD _chem_comp.mon_nstd_flag . _chem_comp.name "N,N'-dihydroxybenzene-1,4-dicarboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 OAN NAL BYD sing 70 n n NAL CAK BYD sing 71 n n OAM CAK BYD doub 72 n n CAK CAC BYD sing 73 n n CAD CAC BYD doub 74 n y CAD CAE BYD sing 75 n y CAC CAB BYD sing 76 n y CAE CAF BYD doub 77 n y CAB CAA BYD doub 78 n y CAF CAA BYD sing 79 n y CAF CAG BYD sing 80 n n OAH CAG BYD doub 81 n n CAG NAI BYD sing 82 n n NAI OAJ BYD sing 83 n n CAA HAA BYD sing 84 n n CAB HAB BYD sing 85 n n CAD HAD BYD sing 86 n n CAE HAE BYD sing 87 n n NAI HAI BYD sing 88 n n NAL HAL BYD sing 89 n n OAJ HAJ BYD sing 90 n n OAN HAN BYD sing 91 n n # _atom_sites.entry_id 5UP8 _atom_sites.fract_transf_matrix[1][1] 0.006418 _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] 0.006418 _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] 0.006418 _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 ZN A 1 201 1 ZN ZN . C 2 ZN A 1 202 2 ZN ZN . D 2 ZN A 1 203 3 ZN ZN . E 3 NA A 1 204 1 NA NA . F 4 BYD A 1 205 1 BYD BYD . G 5 HOH A 1 301 3 HOH HOH . G 5 HOH A 2 302 9 HOH HOH . G 5 HOH A 3 303 4 HOH HOH . G 5 HOH A 4 304 1 HOH HOH . G 5 HOH A 5 305 2 HOH HOH . G 5 HOH A 6 306 10 HOH HOH . G 5 HOH A 7 307 11 HOH HOH . G 5 HOH A 8 308 12 HOH HOH . G 5 HOH A 9 309 5 HOH HOH . G 5 HOH A 10 310 8 HOH HOH . G 5 HOH A 11 311 6 HOH HOH . G 5 HOH A 12 312 7 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 CAA BYD . . . F 4 -39.18 38.493 37.959 0.16 78.32 ? CAA BYD 205 A 1 HETATM 2 C CAB BYD . . . F 4 -39.92 39.403 38.701 0.16 78.33 ? CAB BYD 205 A 1 HETATM 3 C CAC BYD . . . F 4 -39.446 39.835 39.931 0.16 83.2 ? CAC BYD 205 A 1 HETATM 4 C CAD BYD . . . F 4 -38.241 39.362 40.418 0.16 78.51 ? CAD BYD 205 A 1 HETATM 5 C CAE BYD . . . F 4 -37.505 38.456 39.68 0.16 78.53 ? CAE BYD 205 A 1 HETATM 6 C CAF BYD . . . F 4 -37.973 38.02 38.454 0.16 82.63 ? CAF BYD 205 A 1 HETATM 7 C CAG BYD . . . F 4 -37.123 37.021 37.673 0.16 84.65 ? CAG BYD 205 A 1 HETATM 8 C CAK BYD . . . F 4 -40.223 40.832 40.784 0.16 84.5 ? CAK BYD 205 A 1 HETATM 9 N NAI BYD . . . F 4 -36.03 36.353 38.359 0.16 82.85 ? NAI BYD 205 A 1 HETATM 10 N NAL BYD . . . F 4 -39.517 41.536 41.841 0.16 82.47 ? NAL BYD 205 A 1 HETATM 11 O OAH BYD . . . F 4 -37.346 36.801 36.528 0.16 87.89 ? OAH BYD 205 A 1 HETATM 12 O OAJ BYD . . . F 4 -35.216 35.431 37.684 0.16 82.29 1 OAJ BYD 205 A 1 HETATM 13 O OAM BYD . . . F 4 -41.38 41.017 40.597 0.16 89.21 ? OAM BYD 205 A 1 HETATM 14 O OAN BYD . . . F 4 -40.188 42.457 42.66 0.16 82.53 1 OAN BYD 205 A 1 HETATM 15 H HAA BYD . . . F 4 -39.493 38.199 37.134 0.16 93.98 ? HAA BYD 205 A 1 HETATM 16 H HAB BYD . . . F 4 -40.731 39.721 38.375 0.16 94 ? HAB BYD 205 A 1 HETATM 17 H HAD BYD . . . F 4 -37.927 39.653 41.243 0.16 94.22 ? HAD BYD 205 A 1 HETATM 18 H HAE BYD . . . F 4 -36.695 38.138 40.008 0.16 94.23 ? HAE BYD 205 A 1 HETATM 19 H HAI BYD . . . F 4 -35.879 36.525 39.188 0.16 99.42 ? HAI BYD 205 A 1 HETATM 20 H HAL BYD . . . F 4 -38.679 41.387 41.966 0.16 98.96 ? HAL BYD 205 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 20 #