data_1XDI # _model_server_result.job_id MpZWdqkMGU6xCVt-0Yqe2Q _model_server_result.datetime_utc '2024-11-05 00:41:41' _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 1xdi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":999}' # _entry.id 1XDI # _exptl.entry_id 1XDI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 785.55 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN-ADENINE DINUCLEOTIDE' _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 120 _cell.entry_id 1XDI _cell.length_a 244.2 _cell.length_b 244.2 _cell.length_c 104.8 _cell.Z_PDB 36 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XDI _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 PISA,PQS dimeric 2 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F 1 1,2 A,B,C,D,E,F 2 1 # 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_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # _chem_comp.formula 'C27 H33 N9 O15 P2' _chem_comp.formula_weight 785.55 _chem_comp.id FAD _chem_comp.mon_nstd_flag . _chem_comp.name 'FLAVIN-ADENINE DINUCLEOTIDE' _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 PA O1A FAD doub 83 n n PA O2A FAD sing 84 n n PA O5B FAD sing 85 n n PA O3P FAD sing 86 n n O2A HOA2 FAD sing 87 n n O5B C5B FAD sing 88 n n C5B C4B FAD sing 89 n n C5B H51A FAD sing 90 n n C5B H52A FAD sing 91 n n C4B O4B FAD sing 92 n n C4B C3B FAD sing 93 n n C4B H4B FAD sing 94 n n O4B C1B FAD sing 95 n n C3B O3B FAD sing 96 n n C3B C2B FAD sing 97 n n C3B H3B FAD sing 98 n n O3B HO3A FAD sing 99 n n C2B O2B FAD sing 100 n n C2B C1B FAD sing 101 n n C2B H2B FAD sing 102 n n O2B HO2A FAD sing 103 n n C1B N9A FAD sing 104 n n C1B H1B FAD sing 105 n n N9A C8A FAD sing 106 n y N9A C4A FAD sing 107 n y C8A N7A FAD doub 108 n y C8A H8A FAD sing 109 n n N7A C5A FAD sing 110 n y C5A C6A FAD sing 111 n y C5A C4A FAD doub 112 n y C6A N6A FAD sing 113 n n C6A N1A FAD doub 114 n y N6A H61A FAD sing 115 n n N6A H62A FAD sing 116 n n N1A C2A FAD sing 117 n y C2A N3A FAD doub 118 n y C2A H2A FAD sing 119 n n N3A C4A FAD sing 120 n y N1 C2 FAD sing 121 n n N1 C10 FAD doub 122 n n C2 O2 FAD doub 123 n n C2 N3 FAD sing 124 n n N3 C4 FAD sing 125 n n N3 HN3 FAD sing 126 n n C4 O4 FAD doub 127 n n C4 C4X FAD sing 128 n n C4X N5 FAD doub 129 n n C4X C10 FAD sing 130 n n N5 C5X FAD sing 131 n n C5X C6 FAD doub 132 n y C5X C9A FAD sing 133 n y C6 C7 FAD sing 134 n y C6 H6 FAD sing 135 n n C7 C7M FAD sing 136 n n C7 C8 FAD doub 137 n y C7M HM71 FAD sing 138 n n C7M HM72 FAD sing 139 n n C7M HM73 FAD sing 140 n n C8 C8M FAD sing 141 n n C8 C9 FAD sing 142 n y C8M HM81 FAD sing 143 n n C8M HM82 FAD sing 144 n n C8M HM83 FAD sing 145 n n C9 C9A FAD doub 146 n y C9 H9 FAD sing 147 n n C9A N10 FAD sing 148 n n N10 C10 FAD sing 149 n n N10 C1' FAD sing 150 n n C1' C2' FAD sing 151 n n C1' "H1'1" FAD sing 152 n n C1' "H1'2" FAD sing 153 n n C2' O2' FAD sing 154 n n C2' C3' FAD sing 155 n n C2' H2' FAD sing 156 n n O2' HO2' FAD sing 157 n n C3' O3' FAD sing 158 n n C3' C4' FAD sing 159 n n C3' H3' FAD sing 160 n n O3' HO3' FAD sing 161 n n C4' O4' FAD sing 162 n n C4' C5' FAD sing 163 n n C4' H4' FAD sing 164 n n O4' HO4' FAD sing 165 n n C5' O5' FAD sing 166 n n C5' "H5'1" FAD sing 167 n n C5' "H5'2" FAD sing 168 n n O5' P FAD sing 169 n n P O1P FAD doub 170 n n P O2P FAD sing 171 n n P O3P FAD sing 172 n n O2P HOP2 FAD sing 173 n n # _atom_sites.entry_id 1XDI _atom_sites.fract_transf_matrix[1][1] 0.004095 _atom_sites.fract_transf_matrix[1][2] 0.002364 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004729 _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] 0.009542 _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 FAD A 1 999 999 FAD FAD . D 2 FAD B 1 999 999 FAD FAD . E 3 HOH A 1 1000 2 HOH HOH . E 3 HOH A 2 1001 3 HOH HOH . E 3 HOH A 3 1002 6 HOH HOH . E 3 HOH A 4 1003 7 HOH HOH . E 3 HOH A 5 1004 10 HOH HOH . E 3 HOH A 6 1005 11 HOH HOH . E 3 HOH A 7 1006 13 HOH HOH . E 3 HOH A 8 1007 15 HOH HOH . E 3 HOH A 9 1008 20 HOH HOH . E 3 HOH A 10 1009 21 HOH HOH . E 3 HOH A 11 1010 23 HOH HOH . E 3 HOH A 12 1011 25 HOH HOH . E 3 HOH A 13 1012 27 HOH HOH . E 3 HOH A 14 1013 28 HOH HOH . E 3 HOH A 15 1014 29 HOH HOH . E 3 HOH A 16 1015 31 HOH HOH . E 3 HOH A 17 1016 32 HOH HOH . E 3 HOH A 18 1017 34 HOH HOH . E 3 HOH A 19 1018 35 HOH HOH . E 3 HOH A 20 1019 38 HOH HOH . E 3 HOH A 21 1020 40 HOH HOH . E 3 HOH A 22 1021 42 HOH HOH . E 3 HOH A 23 1022 43 HOH HOH . E 3 HOH A 24 1023 44 HOH HOH . E 3 HOH A 25 1024 45 HOH HOH . E 3 HOH A 26 1025 48 HOH HOH . E 3 HOH A 27 1026 49 HOH HOH . E 3 HOH A 28 1027 50 HOH HOH . E 3 HOH A 29 1028 51 HOH HOH . E 3 HOH A 30 1029 53 HOH HOH . E 3 HOH A 31 1030 54 HOH HOH . E 3 HOH A 32 1031 55 HOH HOH . E 3 HOH A 33 1032 57 HOH HOH . E 3 HOH A 34 1033 59 HOH HOH . E 3 HOH A 35 1034 64 HOH HOH . E 3 HOH A 36 1035 65 HOH HOH . E 3 HOH A 37 1036 68 HOH HOH . E 3 HOH A 38 1037 71 HOH HOH . E 3 HOH A 39 1038 74 HOH HOH . E 3 HOH A 40 1039 76 HOH HOH . E 3 HOH A 41 1040 77 HOH HOH . E 3 HOH A 42 1041 78 HOH HOH . E 3 HOH A 43 1042 81 HOH HOH . E 3 HOH A 44 1043 83 HOH HOH . E 3 HOH A 45 1044 84 HOH HOH . E 3 HOH A 46 1045 86 HOH HOH . E 3 HOH A 47 1046 87 HOH HOH . E 3 HOH A 48 1047 89 HOH HOH . E 3 HOH A 49 1048 91 HOH HOH . E 3 HOH A 50 1049 92 HOH HOH . E 3 HOH A 51 1050 94 HOH HOH . E 3 HOH A 52 1051 97 HOH HOH . E 3 HOH A 53 1052 98 HOH HOH . E 3 HOH A 54 1053 100 HOH HOH . E 3 HOH A 55 1054 104 HOH HOH . E 3 HOH A 56 1055 105 HOH HOH . E 3 HOH A 57 1056 107 HOH HOH . F 3 HOH B 1 1000 1 HOH HOH . F 3 HOH B 2 1001 4 HOH HOH . F 3 HOH B 3 1002 5 HOH HOH . F 3 HOH B 4 1003 8 HOH HOH . F 3 HOH B 5 1004 9 HOH HOH . F 3 HOH B 6 1005 12 HOH HOH . F 3 HOH B 7 1006 14 HOH HOH . F 3 HOH B 8 1007 16 HOH HOH . F 3 HOH B 9 1008 17 HOH HOH . F 3 HOH B 10 1009 18 HOH HOH . F 3 HOH B 11 1010 19 HOH HOH . F 3 HOH B 12 1011 22 HOH HOH . F 3 HOH B 13 1012 24 HOH HOH . F 3 HOH B 14 1013 26 HOH HOH . F 3 HOH B 15 1014 30 HOH HOH . F 3 HOH B 16 1015 33 HOH HOH . F 3 HOH B 17 1016 36 HOH HOH . F 3 HOH B 18 1017 37 HOH HOH . F 3 HOH B 19 1018 39 HOH HOH . F 3 HOH B 20 1019 41 HOH HOH . F 3 HOH B 21 1020 46 HOH HOH . F 3 HOH B 22 1021 47 HOH HOH . F 3 HOH B 23 1022 52 HOH HOH . F 3 HOH B 24 1023 56 HOH HOH . F 3 HOH B 25 1024 58 HOH HOH . F 3 HOH B 26 1025 60 HOH HOH . F 3 HOH B 27 1026 61 HOH HOH . F 3 HOH B 28 1027 62 HOH HOH . F 3 HOH B 29 1028 63 HOH HOH . F 3 HOH B 30 1029 66 HOH HOH . F 3 HOH B 31 1030 67 HOH HOH . F 3 HOH B 32 1031 69 HOH HOH . F 3 HOH B 33 1032 70 HOH HOH . F 3 HOH B 34 1033 72 HOH HOH . F 3 HOH B 35 1034 73 HOH HOH . F 3 HOH B 36 1035 75 HOH HOH . F 3 HOH B 37 1036 79 HOH HOH . F 3 HOH B 38 1037 80 HOH HOH . F 3 HOH B 39 1038 82 HOH HOH . F 3 HOH B 40 1039 85 HOH HOH . F 3 HOH B 41 1040 88 HOH HOH . F 3 HOH B 42 1041 90 HOH HOH . F 3 HOH B 43 1042 93 HOH HOH . F 3 HOH B 44 1043 95 HOH HOH . F 3 HOH B 45 1044 96 HOH HOH . F 3 HOH B 46 1045 99 HOH HOH . F 3 HOH B 47 1046 101 HOH HOH . F 3 HOH B 48 1047 102 HOH HOH . F 3 HOH B 49 1048 103 HOH HOH . F 3 HOH B 50 1049 106 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 P PA FAD . . . C 2 -4.898 54.544 16.77 1 10.91 ? PA FAD 999 A 1 HETATM 2 O O1A FAD . . . C 2 -4.969 56.065 16.83 1 12.95 ? O1A FAD 999 A 1 HETATM 3 O O2A FAD . . . C 2 -5.28 53.899 15.439 1 8.28 ? O2A FAD 999 A 1 HETATM 4 O O5B FAD . . . C 2 -5.823 54.067 17.884 1 10.84 ? O5B FAD 999 A 1 HETATM 5 C C5B FAD . . . C 2 -5.485 53.806 19.248 1 10.03 ? C5B FAD 999 A 1 HETATM 6 C C4B FAD . . . C 2 -6.872 53.533 19.789 1 9.05 ? C4B FAD 999 A 1 HETATM 7 O O4B FAD . . . C 2 -6.85 53.183 21.149 1 8.22 ? O4B FAD 999 A 1 HETATM 8 C C3B FAD . . . C 2 -7.981 54.712 19.689 1 8.19 ? C3B FAD 999 A 1 HETATM 9 O O3B FAD . . . C 2 -8.829 54.614 18.544 1 3.9 ? O3B FAD 999 A 1 HETATM 10 C C2B FAD . . . C 2 -8.721 54.663 20.941 1 10.3 ? C2B FAD 999 A 1 HETATM 11 O O2B FAD . . . C 2 -10.048 54.131 20.941 1 12.96 ? O2B FAD 999 A 1 HETATM 12 C C1B FAD . . . C 2 -7.894 53.818 21.877 1 10.01 ? C1B FAD 999 A 1 HETATM 13 N N9A FAD . . . C 2 -7.438 54.409 23.072 1 7.28 ? N9A FAD 999 A 1 HETATM 14 C C8A FAD . . . C 2 -6.862 55.623 23.388 1 8.87 ? C8A FAD 999 A 1 HETATM 15 N N7A FAD . . . C 2 -6.607 55.768 24.663 1 8.41 ? N7A FAD 999 A 1 HETATM 16 C C5A FAD . . . C 2 -7.031 54.6 25.225 1 8.16 ? C5A FAD 999 A 1 HETATM 17 C C6A FAD . . . C 2 -7.061 54.098 26.537 1 6.99 ? C6A FAD 999 A 1 HETATM 18 N N6A FAD . . . C 2 -6.616 54.783 27.57 1 5.33 ? N6A FAD 999 A 1 HETATM 19 N N1A FAD . . . C 2 -7.581 52.836 26.739 1 5.89 ? N1A FAD 999 A 1 HETATM 20 C C2A FAD . . . C 2 -8.048 52.094 25.722 1 5.45 ? C2A FAD 999 A 1 HETATM 21 N N3A FAD . . . C 2 -8.055 52.512 24.399 1 7.49 ? N3A FAD 999 A 1 HETATM 22 C C4A FAD . . . C 2 -7.502 53.831 24.302 1 7.96 ? C4A FAD 999 A 1 HETATM 23 N N1 FAD . . . C 2 -1.252 55.91 8.12 1 5.54 ? N1 FAD 999 A 1 HETATM 24 C C2 FAD . . . C 2 -0.97 55.102 7.053 1 6.11 ? C2 FAD 999 A 1 HETATM 25 O O2 FAD . . . C 2 -0.205 54.125 7.161 1 9.84 ? O2 FAD 999 A 1 HETATM 26 N N3 FAD . . . C 2 -1.55 55.384 5.837 1 3.02 ? N3 FAD 999 A 1 HETATM 27 C C4 FAD . . . C 2 -2.413 56.412 5.578 1 1.67 ? C4 FAD 999 A 1 HETATM 28 O O4 FAD . . . C 2 -2.867 56.551 4.443 1 2.12 ? O4 FAD 999 A 1 HETATM 29 C C4X FAD . . . C 2 -2.681 57.197 6.619 1 3.89 ? C4X FAD 999 A 1 HETATM 30 N N5 FAD . . . C 2 -3.585 58.269 6.373 1 5.44 ? N5 FAD 999 A 1 HETATM 31 C C5X FAD . . . C 2 -3.877 59.104 7.482 1 5.92 ? C5X FAD 999 A 1 HETATM 32 C C6 FAD . . . C 2 -4.78 60.18 7.338 1 6.94 ? C6 FAD 999 A 1 HETATM 33 C C7 FAD . . . C 2 -5.108 61.052 8.41 1 7.15 ? C7 FAD 999 A 1 HETATM 34 C C7M FAD . . . C 2 -6.114 62.209 8.193 1 7.14 ? C7M FAD 999 A 1 HETATM 35 C C8 FAD . . . C 2 -4.477 60.825 9.668 1 5.29 ? C8 FAD 999 A 1 HETATM 36 C C8M FAD . . . C 2 -4.736 61.706 10.879 1 5.84 ? C8M FAD 999 A 1 HETATM 37 C C9 FAD . . . C 2 -3.613 59.784 9.848 1 4.69 ? C9 FAD 999 A 1 HETATM 38 C C9A FAD . . . C 2 -3.302 58.903 8.818 1 4.23 ? C9A FAD 999 A 1 HETATM 39 N N10 FAD . . . C 2 -2.387 57.752 8.95 1 4.19 ? N10 FAD 999 A 1 HETATM 40 C C10 FAD . . . C 2 -2.101 56.934 7.894 1 4.98 ? C10 FAD 999 A 1 HETATM 41 C C1' FAD . . . C 2 -1.858 57.525 10.241 1 2.93 ? C1' FAD 999 A 1 HETATM 42 C C2' FAD . . . C 2 -2.368 56.299 10.939 1 3.17 ? C2' FAD 999 A 1 HETATM 43 O O2' FAD . . . C 2 -3.836 56.365 10.993 1 1.51 ? O2' FAD 999 A 1 HETATM 44 C C3' FAD . . . C 2 -1.833 56.163 12.337 1 4.07 ? C3' FAD 999 A 1 HETATM 45 O O3' FAD . . . C 2 -0.452 55.923 12.255 1 2.64 ? O3' FAD 999 A 1 HETATM 46 C C4' FAD . . . C 2 -2.367 54.981 13.122 1 5.47 ? C4' FAD 999 A 1 HETATM 47 O O4' FAD . . . C 2 -3.805 55.306 13.217 1 9.05 ? O4' FAD 999 A 1 HETATM 48 C C5' FAD . . . C 2 -1.971 54.847 14.51 1 5.8 ? C5' FAD 999 A 1 HETATM 49 O O5' FAD . . . C 2 -2.491 53.627 15.018 1 8.14 ? O5' FAD 999 A 1 HETATM 50 P P FAD . . . C 2 -2.424 53.208 16.52 1 6.72 ? P FAD 999 A 1 HETATM 51 O O1P FAD . . . C 2 -2.943 51.89 16.546 1 7.89 ? O1P FAD 999 A 1 HETATM 52 O O2P FAD . . . C 2 -1.109 53.433 17.159 1 8.26 ? O2P FAD 999 A 1 HETATM 53 O O3P FAD . . . C 2 -3.407 54.229 17.128 1 8.64 ? O3P FAD 999 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 53 #