data_1DDO # _model_server_result.job_id '_Jeh9M7z97YBc7Y1yCM2CQ' _model_server_result.datetime_utc '2024-11-27 18:23:40' _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 1ddo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Y","auth_seq_id":348}' # _entry.id 1DDO # _exptl.entry_id 1DDO _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 8 _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 1DDO _cell.length_a 325.2 _cell.length_b 137.1 _cell.length_c 196.8 _cell.Z_PDB 64 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DDO _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 PISA dimeric 2 author_and_software_defined_assembly 4 PISA tetrameric 4 software_defined_assembly 5 PISA tetrameric 4 software_defined_assembly 6 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,I,J,Q,R,S,AA,EA 1 1 B,F,K,L,T,U,V,BA,FA 2 1 C,G,M,N,W,X,CA,GA 3 1 D,H,O,P,Y,Z,DA,HA 4 1 C,D,G,H,M,N,O,P,W,X,Y,Z,CA,DA,GA,HA 5 1 A,B,E,F,I,J,K,L,Q,R,S,T,U,V,AA,BA,EA,FA 6 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 ? 2 I N N ? 2 K N N ? 2 M N N ? 2 O N N ? 2 Q N N ? 2 T N N ? 2 W N N ? 2 Y 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 111 n n PA O2A FAD sing 112 n n PA O5B FAD sing 113 n n PA O3P FAD sing 114 n n O2A HOA2 FAD sing 115 n n O5B C5B FAD sing 116 n n C5B C4B FAD sing 117 n n C5B H51A FAD sing 118 n n C5B H52A FAD sing 119 n n C4B O4B FAD sing 120 n n C4B C3B FAD sing 121 n n C4B H4B FAD sing 122 n n O4B C1B FAD sing 123 n n C3B O3B FAD sing 124 n n C3B C2B FAD sing 125 n n C3B H3B FAD sing 126 n n O3B HO3A FAD sing 127 n n C2B O2B FAD sing 128 n n C2B C1B FAD sing 129 n n C2B H2B FAD sing 130 n n O2B HO2A FAD sing 131 n n C1B N9A FAD sing 132 n n C1B H1B FAD sing 133 n n N9A C8A FAD sing 134 n y N9A C4A FAD sing 135 n y C8A N7A FAD doub 136 n y C8A H8A FAD sing 137 n n N7A C5A FAD sing 138 n y C5A C6A FAD sing 139 n y C5A C4A FAD doub 140 n y C6A N6A FAD sing 141 n n C6A N1A FAD doub 142 n y N6A H61A FAD sing 143 n n N6A H62A FAD sing 144 n n N1A C2A FAD sing 145 n y C2A N3A FAD doub 146 n y C2A H2A FAD sing 147 n n N3A C4A FAD sing 148 n y N1 C2 FAD sing 149 n n N1 C10 FAD doub 150 n n C2 O2 FAD doub 151 n n C2 N3 FAD sing 152 n n N3 C4 FAD sing 153 n n N3 HN3 FAD sing 154 n n C4 O4 FAD doub 155 n n C4 C4X FAD sing 156 n n C4X N5 FAD doub 157 n n C4X C10 FAD sing 158 n n N5 C5X FAD sing 159 n n C5X C6 FAD doub 160 n y C5X C9A FAD sing 161 n y C6 C7 FAD sing 162 n y C6 H6 FAD sing 163 n n C7 C7M FAD sing 164 n n C7 C8 FAD doub 165 n y C7M HM71 FAD sing 166 n n C7M HM72 FAD sing 167 n n C7M HM73 FAD sing 168 n n C8 C8M FAD sing 169 n n C8 C9 FAD sing 170 n y C8M HM81 FAD sing 171 n n C8M HM82 FAD sing 172 n n C8M HM83 FAD sing 173 n n C9 C9A FAD doub 174 n y C9 H9 FAD sing 175 n n C9A N10 FAD sing 176 n n N10 C10 FAD sing 177 n n N10 C1' FAD sing 178 n n C1' C2' FAD sing 179 n n C1' "H1'1" FAD sing 180 n n C1' "H1'2" FAD sing 181 n n C2' O2' FAD sing 182 n n C2' C3' FAD sing 183 n n C2' H2' FAD sing 184 n n O2' HO2' FAD sing 185 n n C3' O3' FAD sing 186 n n C3' C4' FAD sing 187 n n C3' H3' FAD sing 188 n n O3' HO3' FAD sing 189 n n C4' O4' FAD sing 190 n n C4' C5' FAD sing 191 n n C4' H4' FAD sing 192 n n O4' HO4' FAD sing 193 n n C5' O5' FAD sing 194 n n C5' "H5'1" FAD sing 195 n n C5' "H5'2" FAD sing 196 n n O5' P FAD sing 197 n n P O1P FAD doub 198 n n P O2P FAD sing 199 n n P O3P FAD sing 200 n n O2P HOP2 FAD sing 201 n n # _atom_sites.entry_id 1DDO _atom_sites.fract_transf_matrix[1][1] 0.003075 _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] 0.007294 _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] 0.005081 _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 I 2 FAD A 1 348 340 FAD FAD . J 3 ITR A 1 349 341 ITR ITR . K 2 FAD B 1 348 340 FAD FAD . L 3 ITR B 1 349 341 ITR ITR . M 2 FAD C 1 348 340 FAD FAD . N 3 ITR C 1 349 341 ITR ITR . O 2 FAD D 1 348 340 FAD FAD . P 3 ITR D 1 349 341 ITR ITR . Q 2 FAD E 1 348 340 FAD FAD . R 3 ITR E 1 349 341 ITR ITR . S 4 DTR E 1 350 342 DTR DTR . T 2 FAD F 1 348 340 FAD FAD . U 3 ITR F 1 349 341 ITR ITR . V 4 DTR F 1 350 343 DTR DTR . W 2 FAD G 1 348 340 FAD FAD . X 3 ITR G 1 349 341 ITR ITR . Y 2 FAD H 1 348 340 FAD FAD . Z 3 ITR H 1 349 341 ITR ITR . AA 5 HOH A 1 350 1 HOH HOH . AA 5 HOH A 2 351 2 HOH HOH . AA 5 HOH A 3 352 3 HOH HOH . AA 5 HOH A 4 353 4 HOH HOH . AA 5 HOH A 5 354 6 HOH HOH . AA 5 HOH A 6 355 7 HOH HOH . AA 5 HOH A 7 356 8 HOH HOH . AA 5 HOH A 8 357 9 HOH HOH . AA 5 HOH A 9 358 11 HOH HOH . AA 5 HOH A 10 359 12 HOH HOH . AA 5 HOH A 11 360 13 HOH HOH . AA 5 HOH A 12 361 14 HOH HOH . AA 5 HOH A 13 362 15 HOH HOH . AA 5 HOH A 14 363 17 HOH HOH . AA 5 HOH A 15 364 18 HOH HOH . AA 5 HOH A 16 365 19 HOH HOH . AA 5 HOH A 17 366 92 HOH HOH . BA 5 HOH B 1 350 20 HOH HOH . BA 5 HOH B 2 351 21 HOH HOH . BA 5 HOH B 3 352 22 HOH HOH . BA 5 HOH B 4 353 23 HOH HOH . BA 5 HOH B 5 354 25 HOH HOH . BA 5 HOH B 6 355 26 HOH HOH . BA 5 HOH B 7 356 30 HOH HOH . CA 5 HOH C 1 350 24 HOH HOH . CA 5 HOH C 2 351 27 HOH HOH . CA 5 HOH C 3 352 28 HOH HOH . CA 5 HOH C 4 353 29 HOH HOH . CA 5 HOH C 5 354 31 HOH HOH . CA 5 HOH C 6 355 32 HOH HOH . CA 5 HOH C 7 356 33 HOH HOH . CA 5 HOH C 8 357 34 HOH HOH . CA 5 HOH C 9 358 35 HOH HOH . CA 5 HOH C 10 359 36 HOH HOH . CA 5 HOH C 11 360 37 HOH HOH . CA 5 HOH C 12 361 38 HOH HOH . DA 5 HOH D 1 350 39 HOH HOH . DA 5 HOH D 2 351 40 HOH HOH . DA 5 HOH D 3 352 41 HOH HOH . DA 5 HOH D 4 353 42 HOH HOH . DA 5 HOH D 5 354 43 HOH HOH . DA 5 HOH D 6 355 44 HOH HOH . DA 5 HOH D 7 356 45 HOH HOH . DA 5 HOH D 8 357 46 HOH HOH . DA 5 HOH D 9 358 48 HOH HOH . DA 5 HOH D 10 359 49 HOH HOH . DA 5 HOH D 11 360 50 HOH HOH . DA 5 HOH D 12 361 51 HOH HOH . DA 5 HOH D 13 362 52 HOH HOH . DA 5 HOH D 14 363 53 HOH HOH . DA 5 HOH D 15 364 54 HOH HOH . DA 5 HOH D 16 365 55 HOH HOH . DA 5 HOH D 17 366 57 HOH HOH . DA 5 HOH D 18 367 58 HOH HOH . DA 5 HOH D 19 368 60 HOH HOH . DA 5 HOH D 20 369 106 HOH HOH . DA 5 HOH D 21 370 107 HOH HOH . EA 5 HOH E 1 351 47 HOH HOH . EA 5 HOH E 2 352 61 HOH HOH . EA 5 HOH E 3 353 62 HOH HOH . EA 5 HOH E 4 354 63 HOH HOH . EA 5 HOH E 5 355 64 HOH HOH . EA 5 HOH E 6 356 65 HOH HOH . EA 5 HOH E 7 357 66 HOH HOH . EA 5 HOH E 8 358 67 HOH HOH . EA 5 HOH E 9 359 68 HOH HOH . EA 5 HOH E 10 360 69 HOH HOH . EA 5 HOH E 11 361 70 HOH HOH . EA 5 HOH E 12 362 71 HOH HOH . EA 5 HOH E 13 363 72 HOH HOH . EA 5 HOH E 14 364 73 HOH HOH . EA 5 HOH E 15 365 74 HOH HOH . EA 5 HOH E 16 366 75 HOH HOH . FA 5 HOH F 1 351 5 HOH HOH . FA 5 HOH F 2 352 10 HOH HOH . FA 5 HOH F 3 353 16 HOH HOH . FA 5 HOH F 4 354 56 HOH HOH . FA 5 HOH F 5 355 76 HOH HOH . FA 5 HOH F 6 356 77 HOH HOH . FA 5 HOH F 7 357 78 HOH HOH . FA 5 HOH F 8 358 79 HOH HOH . FA 5 HOH F 9 359 80 HOH HOH . FA 5 HOH F 10 360 81 HOH HOH . FA 5 HOH F 11 361 82 HOH HOH . FA 5 HOH F 12 362 83 HOH HOH . FA 5 HOH F 13 363 84 HOH HOH . FA 5 HOH F 14 364 85 HOH HOH . FA 5 HOH F 15 365 86 HOH HOH . FA 5 HOH F 16 366 87 HOH HOH . FA 5 HOH F 17 367 88 HOH HOH . FA 5 HOH F 18 368 89 HOH HOH . FA 5 HOH F 19 369 90 HOH HOH . FA 5 HOH F 20 370 91 HOH HOH . FA 5 HOH F 21 371 93 HOH HOH . GA 5 HOH G 1 350 59 HOH HOH . GA 5 HOH G 2 351 94 HOH HOH . GA 5 HOH G 3 352 95 HOH HOH . HA 5 HOH H 1 350 96 HOH HOH . HA 5 HOH H 2 351 97 HOH HOH . HA 5 HOH H 3 352 98 HOH HOH . HA 5 HOH H 4 353 99 HOH HOH . HA 5 HOH H 5 354 100 HOH HOH . HA 5 HOH H 6 355 101 HOH HOH . HA 5 HOH H 7 356 102 HOH HOH . HA 5 HOH H 8 357 103 HOH HOH . HA 5 HOH H 9 358 104 HOH HOH . HA 5 HOH H 10 359 105 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 . . . Y 2 149.509 77.461 27.392 1 28.79 ? PA FAD 348 H 1 HETATM 2 O O1A FAD . . . Y 2 148.56 76.294 27.399 1 29.71 ? O1A FAD 348 H 1 HETATM 3 O O2A FAD . . . Y 2 150.95 77.146 27.391 1 29.14 ? O2A FAD 348 H 1 HETATM 4 O O5B FAD . . . Y 2 149.125 78.512 26.251 1 24.85 ? O5B FAD 348 H 1 HETATM 5 C C5B FAD . . . Y 2 150.172 79.189 25.633 1 27.5 ? C5B FAD 348 H 1 HETATM 6 C C4B FAD . . . Y 2 149.736 79.671 24.27 1 30.81 ? C4B FAD 348 H 1 HETATM 7 O O4B FAD . . . Y 2 150.232 80.96 23.879 1 32.21 ? O4B FAD 348 H 1 HETATM 8 C C3B FAD . . . Y 2 150.166 78.787 23.126 1 32.59 ? C3B FAD 348 H 1 HETATM 9 O O3B FAD . . . Y 2 149.239 79.039 22.08 1 33.61 ? O3B FAD 348 H 1 HETATM 10 C C2B FAD . . . Y 2 151.527 79.348 22.778 1 33.04 ? C2B FAD 348 H 1 HETATM 11 O O2B FAD . . . Y 2 151.706 78.876 21.457 1 34.58 ? O2B FAD 348 H 1 HETATM 12 C C1B FAD . . . Y 2 151.101 80.811 22.779 1 33.55 ? C1B FAD 348 H 1 HETATM 13 N N9A FAD . . . Y 2 152.041 81.942 22.757 1 36.67 ? N9A FAD 348 H 1 HETATM 14 C C8A FAD . . . Y 2 152.696 82.511 23.82 1 38.63 ? C8A FAD 348 H 1 HETATM 15 N N7A FAD . . . Y 2 153.424 83.549 23.502 1 40.34 ? N7A FAD 348 H 1 HETATM 16 C C5A FAD . . . Y 2 153.179 83.716 22.142 1 41.89 ? C5A FAD 348 H 1 HETATM 17 C C6A FAD . . . Y 2 153.662 84.651 21.196 1 41.49 ? C6A FAD 348 H 1 HETATM 18 N N6A FAD . . . Y 2 154.52 85.636 21.514 1 42.1 ? N6A FAD 348 H 1 HETATM 19 N N1A FAD . . . Y 2 153.234 84.546 19.927 1 43.39 ? N1A FAD 348 H 1 HETATM 20 C C2A FAD . . . Y 2 152.393 83.547 19.631 1 43.38 ? C2A FAD 348 H 1 HETATM 21 N N3A FAD . . . Y 2 151.882 82.595 20.411 1 43.01 ? N3A FAD 348 H 1 HETATM 22 C C4A FAD . . . Y 2 152.317 82.747 21.672 1 42.03 ? C4A FAD 348 H 1 HETATM 23 N N1 FAD . . . Y 2 145.859 72.921 35.61 1 28.97 ? N1 FAD 348 H 1 HETATM 24 C C2 FAD . . . Y 2 144.717 72.464 36.092 1 27.98 ? C2 FAD 348 H 1 HETATM 25 O O2 FAD . . . Y 2 143.724 73.212 36.192 1 27.54 ? O2 FAD 348 H 1 HETATM 26 N N3 FAD . . . Y 2 144.667 71.125 36.468 1 27.35 ? N3 FAD 348 H 1 HETATM 27 C C4 FAD . . . Y 2 145.719 70.228 36.328 1 28.74 ? C4 FAD 348 H 1 HETATM 28 O O4 FAD . . . Y 2 145.668 69.032 36.644 1 31.55 ? O4 FAD 348 H 1 HETATM 29 C C4X FAD . . . Y 2 146.937 70.758 35.814 1 27.36 ? C4X FAD 348 H 1 HETATM 30 N N5 FAD . . . Y 2 147.963 69.906 35.619 1 26.41 ? N5 FAD 348 H 1 HETATM 31 C C5X FAD . . . Y 2 149.067 70.43 35.101 1 25.01 ? C5X FAD 348 H 1 HETATM 32 C C6 FAD . . . Y 2 150.201 69.632 35.098 1 23.95 ? C6 FAD 348 H 1 HETATM 33 C C7 FAD . . . Y 2 151.396 70.136 34.582 1 23.76 ? C7 FAD 348 H 1 HETATM 34 C C7M FAD . . . Y 2 152.653 69.333 34.441 1 22.96 ? C7M FAD 348 H 1 HETATM 35 C C8 FAD . . . Y 2 151.455 71.461 34.108 1 24.52 ? C8 FAD 348 H 1 HETATM 36 C C8M FAD . . . Y 2 152.749 71.981 33.496 1 25.02 ? C8M FAD 348 H 1 HETATM 37 C C9 FAD . . . Y 2 150.299 72.246 34.161 1 24.01 ? C9 FAD 348 H 1 HETATM 38 C C9A FAD . . . Y 2 149.124 71.766 34.688 1 22.65 ? C9A FAD 348 H 1 HETATM 39 N N10 FAD . . . Y 2 148.079 72.609 34.879 1 22.96 ? N10 FAD 348 H 1 HETATM 40 C C10 FAD . . . Y 2 146.949 72.123 35.466 1 26.19 ? C10 FAD 348 H 1 HETATM 41 C C1' FAD . . . Y 2 148.131 74.061 34.587 1 20.48 ? C1' FAD 348 H 1 HETATM 42 C C2' FAD . . . Y 2 147.744 74.29 33.159 1 20.84 ? C2' FAD 348 H 1 HETATM 43 O O2' FAD . . . Y 2 148.567 73.442 32.359 1 22.16 ? O2' FAD 348 H 1 HETATM 44 C C3' FAD . . . Y 2 148.077 75.736 32.859 1 20.74 ? C3' FAD 348 H 1 HETATM 45 O O3' FAD . . . Y 2 147.488 76.493 33.886 1 23.13 ? O3' FAD 348 H 1 HETATM 46 C C4' FAD . . . Y 2 147.382 76.134 31.588 1 20.13 ? C4' FAD 348 H 1 HETATM 47 O O4' FAD . . . Y 2 147.803 75.202 30.571 1 22.08 ? O4' FAD 348 H 1 HETATM 48 C C5' FAD . . . Y 2 147.795 77.537 31.206 1 20.9 ? C5' FAD 348 H 1 HETATM 49 O O5' FAD . . . Y 2 147.166 77.776 29.963 1 23.78 ? O5' FAD 348 H 1 HETATM 50 P P FAD . . . Y 2 147.618 78.912 28.95 1 24.9 ? P FAD 348 H 1 HETATM 51 O O1P FAD . . . Y 2 146.828 78.959 27.669 1 26.94 ? O1P FAD 348 H 1 HETATM 52 O O2P FAD . . . Y 2 147.51 80.105 29.838 1 26.31 ? O2P FAD 348 H 1 HETATM 53 O O3P FAD . . . Y 2 149.141 78.464 28.605 1 24.91 ? O3P FAD 348 H 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 37 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 53 #