data_1ZG3 # _model_server_result.job_id 8GnbNHPqt2jVSE-11YC0aw _model_server_result.datetime_utc '2024-10-15 14:30:40' _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 1zg3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":365}' # _entry.id 1ZG3 # _exptl.entry_id 1ZG3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 272.253 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2S,3R)-2,7-DIHYDROXY-3-(4-HYDROXYPHENYL)-2,3-DIHYDRO-4H-CHROMEN-4-ONE _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 1ZG3 _cell.length_a 72.106 _cell.length_b 72.106 _cell.length_c 188.398 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1ZG3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 95 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 2 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 6_575 x,-y+2,-z+1/2 1 0 0 0 -1 0 0 0 -1 0 144.212 94.199 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C15 H12 O5' _chem_comp.formula_weight 272.253 _chem_comp.id 2HI _chem_comp.mon_nstd_flag . _chem_comp.name (2S,3R)-2,7-DIHYDROXY-3-(4-HYDROXYPHENYL)-2,3-DIHYDRO-4H-CHROMEN-4-ONE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2,7,4'-TRIHYDROXYISOFLAVANONE" # 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 2HI doub 1 n y C1 C6 2HI sing 2 n y C1 H1 2HI sing 3 n n C2 C3 2HI sing 4 n y C2 H2 2HI sing 5 n n C3 C4 2HI doub 6 n y C3 C7 2HI sing 7 n n C4 C5 2HI sing 8 n y C4 O1 2HI sing 9 n n C5 C6 2HI doub 10 n y C5 H5 2HI sing 11 n n C6 O5 2HI sing 12 n n O1 C9 2HI sing 13 n n C7 O2 2HI doub 14 n n C7 C8 2HI sing 15 n n C8 C9 2HI sing 16 n n C8 C10 2HI sing 17 n n C8 H8 2HI sing 18 n n C9 O3 2HI sing 19 n n C9 H9 2HI sing 20 n n O3 HO3 2HI sing 21 n n C10 C11 2HI sing 22 n y C10 C15 2HI doub 23 n y C11 C12 2HI doub 24 n y C11 H11 2HI sing 25 n n C12 C13 2HI sing 26 n y C12 H12 2HI sing 27 n n C13 C14 2HI doub 28 n y C13 O4 2HI sing 29 n n C14 C15 2HI sing 30 n y C14 H14 2HI sing 31 n n C15 H15 2HI sing 32 n n O4 HO4 2HI sing 33 n n O5 HO5 2HI sing 34 n n # _atom_sites.entry_id 1ZG3 _atom_sites.fract_transf_matrix[1][1] 0.013868 _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] 0.013868 _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] 0.005308 _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 2HI A 1 365 365 2HI 2HI . C 3 SAH A 1 3994 3994 SAH SAH . D 4 HOH A 1 3995 1 HOH TIP . D 4 HOH A 2 3996 2 HOH TIP . D 4 HOH A 3 3997 3 HOH TIP . D 4 HOH A 4 3998 4 HOH TIP . D 4 HOH A 5 3999 5 HOH TIP . D 4 HOH A 6 4000 6 HOH TIP . D 4 HOH A 7 4001 7 HOH TIP . D 4 HOH A 8 4002 8 HOH TIP . D 4 HOH A 9 4003 9 HOH TIP . D 4 HOH A 10 4004 10 HOH TIP . D 4 HOH A 11 4005 11 HOH TIP . D 4 HOH A 12 4006 12 HOH TIP . D 4 HOH A 13 4007 13 HOH TIP . D 4 HOH A 14 4008 14 HOH TIP . D 4 HOH A 15 4009 15 HOH TIP . D 4 HOH A 16 4010 16 HOH TIP . D 4 HOH A 17 4011 17 HOH TIP . D 4 HOH A 18 4012 18 HOH TIP . D 4 HOH A 19 4013 19 HOH TIP . D 4 HOH A 20 4014 20 HOH TIP . D 4 HOH A 21 4015 21 HOH TIP . D 4 HOH A 22 4016 22 HOH TIP . D 4 HOH A 23 4017 23 HOH TIP . D 4 HOH A 24 4018 24 HOH TIP . D 4 HOH A 25 4019 25 HOH TIP . D 4 HOH A 26 4020 26 HOH TIP . D 4 HOH A 27 4021 27 HOH TIP . D 4 HOH A 28 4022 28 HOH TIP . D 4 HOH A 29 4023 29 HOH TIP . D 4 HOH A 30 4024 30 HOH TIP . D 4 HOH A 31 4025 31 HOH TIP . D 4 HOH A 32 4026 32 HOH TIP . D 4 HOH A 33 4027 33 HOH TIP . D 4 HOH A 34 4028 34 HOH TIP . D 4 HOH A 35 4029 35 HOH TIP . D 4 HOH A 36 4030 36 HOH TIP . D 4 HOH A 37 4031 37 HOH TIP . D 4 HOH A 38 4032 38 HOH TIP . D 4 HOH A 39 4033 39 HOH TIP . D 4 HOH A 40 4034 40 HOH TIP . D 4 HOH A 41 4035 41 HOH TIP . D 4 HOH A 42 4036 42 HOH TIP . D 4 HOH A 43 4037 43 HOH TIP . D 4 HOH A 44 4038 44 HOH TIP . D 4 HOH A 45 4039 45 HOH TIP . D 4 HOH A 46 4040 46 HOH TIP . D 4 HOH A 47 4041 47 HOH TIP . D 4 HOH A 48 4042 48 HOH TIP . D 4 HOH A 49 4043 49 HOH TIP . D 4 HOH A 50 4044 50 HOH TIP . D 4 HOH A 51 4045 51 HOH TIP . D 4 HOH A 52 4046 52 HOH TIP . D 4 HOH A 53 4047 53 HOH TIP . D 4 HOH A 54 4048 54 HOH TIP . D 4 HOH A 55 4049 55 HOH TIP . D 4 HOH A 56 4050 56 HOH TIP . D 4 HOH A 57 4051 57 HOH TIP . D 4 HOH A 58 4052 58 HOH TIP . D 4 HOH A 59 4053 59 HOH TIP . D 4 HOH A 60 4054 60 HOH TIP . D 4 HOH A 61 4055 61 HOH TIP . D 4 HOH A 62 4056 62 HOH TIP . D 4 HOH A 63 4057 63 HOH TIP . D 4 HOH A 64 4058 64 HOH TIP . D 4 HOH A 65 4059 65 HOH TIP . D 4 HOH A 66 4060 67 HOH TIP . D 4 HOH A 67 4061 68 HOH TIP . D 4 HOH A 68 4062 69 HOH TIP . D 4 HOH A 69 4063 70 HOH TIP . D 4 HOH A 70 4064 71 HOH TIP . D 4 HOH A 71 4065 72 HOH TIP . D 4 HOH A 72 4066 73 HOH TIP . D 4 HOH A 73 4067 74 HOH TIP . D 4 HOH A 74 4068 75 HOH TIP . D 4 HOH A 75 4069 76 HOH TIP . D 4 HOH A 76 4070 77 HOH TIP . D 4 HOH A 77 4071 79 HOH TIP . D 4 HOH A 78 4072 80 HOH TIP . D 4 HOH A 79 4073 81 HOH TIP . D 4 HOH A 80 4074 82 HOH TIP . D 4 HOH A 81 4075 83 HOH TIP . D 4 HOH A 82 4076 84 HOH TIP . D 4 HOH A 83 4077 85 HOH TIP . D 4 HOH A 84 4078 86 HOH TIP . D 4 HOH A 85 4079 87 HOH TIP . D 4 HOH A 86 4080 88 HOH TIP . D 4 HOH A 87 4081 89 HOH TIP . D 4 HOH A 88 4082 90 HOH TIP . D 4 HOH A 89 4083 91 HOH TIP . D 4 HOH A 90 4084 92 HOH TIP . D 4 HOH A 91 4085 93 HOH TIP . D 4 HOH A 92 4086 94 HOH TIP . D 4 HOH A 93 4087 95 HOH TIP . D 4 HOH A 94 4088 96 HOH TIP . D 4 HOH A 95 4089 97 HOH TIP . D 4 HOH A 96 4090 98 HOH TIP . D 4 HOH A 97 4091 99 HOH TIP . D 4 HOH A 98 4092 100 HOH TIP . D 4 HOH A 99 4093 102 HOH TIP . D 4 HOH A 100 4094 103 HOH TIP . D 4 HOH A 101 4095 104 HOH TIP . D 4 HOH A 102 4096 105 HOH TIP . D 4 HOH A 103 4097 106 HOH TIP . D 4 HOH A 104 4098 107 HOH TIP . D 4 HOH A 105 4099 109 HOH TIP . D 4 HOH A 106 4100 110 HOH TIP . D 4 HOH A 107 4101 111 HOH TIP . D 4 HOH A 108 4102 112 HOH TIP . # 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 2HI . . . B 2 100.579 78.741 34.136 1 19.11 ? C1 2HI 365 A 1 HETATM 2 C C2 2HI . . . B 2 101.875 78.407 33.706 1 19.94 ? C2 2HI 365 A 1 HETATM 3 C C3 2HI . . . B 2 102.29 77.056 33.733 1 20.92 ? C3 2HI 365 A 1 HETATM 4 C C4 2HI . . . B 2 101.415 76.012 34.214 1 21 ? C4 2HI 365 A 1 HETATM 5 C C5 2HI . . . B 2 100.122 76.388 34.643 1 20.04 ? C5 2HI 365 A 1 HETATM 6 C C6 2HI . . . B 2 99.691 77.747 34.602 1 19.31 ? C6 2HI 365 A 1 HETATM 7 O O1 2HI . . . B 2 101.816 74.672 34.264 1 21.31 ? O1 2HI 365 A 1 HETATM 8 C C7 2HI . . . B 2 103.658 76.715 33.241 1 22.16 ? C7 2HI 365 A 1 HETATM 9 O O2 2HI . . . B 2 104.442 77.568 32.836 1 24.48 ? O2 2HI 365 A 1 HETATM 10 C C8 2HI . . . B 2 104.012 75.22 33.204 1 22.65 ? C8 2HI 365 A 1 HETATM 11 C C9 2HI . . . B 2 103.251 74.433 34.28 1 20.41 ? C9 2HI 365 A 1 HETATM 12 O O3 2HI . . . B 2 103.617 74.818 35.601 1 20.27 ? O3 2HI 365 A 1 HETATM 13 C C10 2HI . . . B 2 103.66 74.796 31.756 1 23.35 ? C10 2HI 365 A 1 HETATM 14 C C11 2HI . . . B 2 102.325 74.402 31.363 1 23.89 ? C11 2HI 365 A 1 HETATM 15 C C12 2HI . . . B 2 102.025 74.051 30.023 1 25.21 ? C12 2HI 365 A 1 HETATM 16 C C13 2HI . . . B 2 103.03 74.078 29.031 1 25.42 ? C13 2HI 365 A 1 HETATM 17 C C14 2HI . . . B 2 104.352 74.462 29.406 1 24.76 ? C14 2HI 365 A 1 HETATM 18 C C15 2HI . . . B 2 104.664 74.818 30.751 1 21.87 ? C15 2HI 365 A 1 HETATM 19 O O4 2HI . . . B 2 102.742 73.748 27.751 1 28.99 ? O4 2HI 365 A 1 HETATM 20 O O5 2HI . . . B 2 98.455 78.089 35.003 1 19.73 ? O5 2HI 365 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #