data_3HY8 # _model_server_result.job_id 9N7azSqfkK5RQ6ChIP1SZA _model_server_result.datetime_utc '2025-03-06 09:48:20' _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 3hy8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":390}' # _entry.id 3HY8 # _exptl.entry_id 3HY8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 456.344 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN MONONUCLEOTIDE' _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 120 _cell.entry_id 3HY8 _cell.length_a 82.27 _cell.length_b 82.27 _cell.length_c 58.788 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3HY8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _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,E,F,G _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' 5_555 x-y,-y,-z+2/3 1 0 0 0 -1 0 0 0 -1 0 0 39.192 # _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 'C17 H21 N4 O9 P' _chem_comp.formula_weight 456.344 _chem_comp.id FMN _chem_comp.mon_nstd_flag . _chem_comp.name 'FLAVIN MONONUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'RIBOFLAVIN MONOPHOSPHATE' # 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 N1 C2 FMN sing 83 n n N1 C10 FMN doub 84 n n C2 O2 FMN doub 85 n n C2 N3 FMN sing 86 n n N3 C4 FMN sing 87 n n N3 HN3 FMN sing 88 n n C4 O4 FMN doub 89 n n C4 C4A FMN sing 90 n n C4A N5 FMN doub 91 n n C4A C10 FMN sing 92 n n N5 C5A FMN sing 93 n n C5A C6 FMN doub 94 n y C5A C9A FMN sing 95 n y C6 C7 FMN sing 96 n y C6 H6 FMN sing 97 n n C7 C7M FMN sing 98 n n C7 C8 FMN doub 99 n y C7M HM71 FMN sing 100 n n C7M HM72 FMN sing 101 n n C7M HM73 FMN sing 102 n n C8 C8M FMN sing 103 n n C8 C9 FMN sing 104 n y C8M HM81 FMN sing 105 n n C8M HM82 FMN sing 106 n n C8M HM83 FMN sing 107 n n C9 C9A FMN doub 108 n y C9 H9 FMN sing 109 n n C9A N10 FMN sing 110 n n N10 C10 FMN sing 111 n n N10 C1' FMN sing 112 n n C1' C2' FMN sing 113 n n C1' "H1'1" FMN sing 114 n n C1' "H1'2" FMN sing 115 n n C2' O2' FMN sing 116 n n C2' C3' FMN sing 117 n n C2' H2' FMN sing 118 n n O2' HO2' FMN sing 119 n n C3' O3' FMN sing 120 n n C3' C4' FMN sing 121 n n C3' H3' FMN sing 122 n n O3' HO3' FMN sing 123 n n C4' O4' FMN sing 124 n n C4' C5' FMN sing 125 n n C4' H4' FMN sing 126 n n O4' HO4' FMN sing 127 n n C5' O5' FMN sing 128 n n C5' "H5'1" FMN sing 129 n n C5' "H5'2" FMN sing 130 n n O5' P FMN sing 131 n n P O1P FMN doub 132 n n P O2P FMN sing 133 n n P O3P FMN sing 134 n n O2P HOP2 FMN sing 135 n n O3P HOP3 FMN sing 136 n n # _atom_sites.entry_id 3HY8 _atom_sites.fract_transf_matrix[1][1] 0.012155 _atom_sites.fract_transf_matrix[1][2] 0.007018 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014035 _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] 0.01701 _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 FMN A 1 390 390 FMN FMN . C 3 PLP A 1 350 350 PLP PLP . D 4 PO4 A 1 360 360 PO4 PO4 . E 4 PO4 A 1 370 370 PO4 PO4 . F 4 PO4 A 1 380 380 PO4 PO4 . G 5 HOH A 1 263 263 HOH HOH . G 5 HOH A 2 266 266 HOH HOH . G 5 HOH A 3 269 269 HOH HOH . G 5 HOH A 4 271 271 HOH HOH . G 5 HOH A 5 272 272 HOH HOH . G 5 HOH A 6 273 273 HOH HOH . G 5 HOH A 7 274 274 HOH HOH . G 5 HOH A 8 278 278 HOH HOH . G 5 HOH A 9 279 279 HOH HOH . G 5 HOH A 10 280 280 HOH HOH . G 5 HOH A 11 281 281 HOH HOH . G 5 HOH A 12 282 282 HOH HOH . G 5 HOH A 13 283 283 HOH HOH . G 5 HOH A 14 284 284 HOH HOH . G 5 HOH A 15 287 287 HOH HOH . G 5 HOH A 16 288 288 HOH HOH . G 5 HOH A 17 289 289 HOH HOH . G 5 HOH A 18 290 290 HOH HOH . G 5 HOH A 19 292 292 HOH HOH . G 5 HOH A 20 293 293 HOH HOH . G 5 HOH A 21 294 294 HOH HOH . G 5 HOH A 22 295 295 HOH HOH . G 5 HOH A 23 296 296 HOH HOH . G 5 HOH A 24 297 297 HOH HOH . G 5 HOH A 25 298 298 HOH HOH . G 5 HOH A 26 299 299 HOH HOH . G 5 HOH A 27 300 300 HOH HOH . G 5 HOH A 28 301 301 HOH HOH . G 5 HOH A 29 302 302 HOH HOH . G 5 HOH A 30 304 304 HOH HOH . G 5 HOH A 31 305 305 HOH HOH . G 5 HOH A 32 306 306 HOH HOH . G 5 HOH A 33 308 308 HOH HOH . G 5 HOH A 34 309 309 HOH HOH . G 5 HOH A 35 310 310 HOH HOH . G 5 HOH A 36 311 311 HOH HOH . G 5 HOH A 37 316 316 HOH HOH . G 5 HOH A 38 317 317 HOH HOH . G 5 HOH A 39 318 318 HOH HOH . G 5 HOH A 40 320 320 HOH HOH . G 5 HOH A 41 322 322 HOH HOH . G 5 HOH A 42 323 323 HOH HOH . G 5 HOH A 43 324 324 HOH HOH . G 5 HOH A 44 325 325 HOH HOH . G 5 HOH A 45 326 326 HOH HOH . G 5 HOH A 46 327 327 HOH HOH . G 5 HOH A 47 328 328 HOH HOH . G 5 HOH A 48 329 329 HOH HOH . G 5 HOH A 49 331 331 HOH HOH . G 5 HOH A 50 333 333 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 N N1 FMN . . . B 2 26.189 12.885 19.631 1 44.3 ? N1 FMN 390 A 1 HETATM 2 C C2 FMN . . . B 2 25.567 13.447 20.669 1 46.66 ? C2 FMN 390 A 1 HETATM 3 O O2 FMN . . . B 2 24.517 14.027 20.586 1 48.78 ? O2 FMN 390 A 1 HETATM 4 N N3 FMN . . . B 2 26.157 13.354 21.971 1 35.54 ? N3 FMN 390 A 1 HETATM 5 C C4 FMN . . . B 2 27.379 12.715 22.222 1 38.52 ? C4 FMN 390 A 1 HETATM 6 O O4 FMN . . . B 2 27.821 12.686 23.368 1 42.11 ? O4 FMN 390 A 1 HETATM 7 C C4A FMN . . . B 2 28.062 12.096 21.108 1 37.47 ? C4A FMN 390 A 1 HETATM 8 N N5 FMN . . . B 2 29.237 11.412 21.231 1 38.97 ? N5 FMN 390 A 1 HETATM 9 C C5A FMN . . . B 2 29.866 10.741 20.18 1 36.46 ? C5A FMN 390 A 1 HETATM 10 C C6 FMN . . . B 2 31.054 9.97 20.412 1 48.86 ? C6 FMN 390 A 1 HETATM 11 C C7 FMN . . . B 2 31.657 9.24 19.343 1 42.23 ? C7 FMN 390 A 1 HETATM 12 C C7M FMN . . . B 2 32.888 8.387 19.601 1 35.98 ? C7M FMN 390 A 1 HETATM 13 C C8 FMN . . . B 2 31.084 9.284 17.973 1 36.59 ? C8 FMN 390 A 1 HETATM 14 C C8M FMN . . . B 2 31.614 8.532 16.768 1 45.36 ? C8M FMN 390 A 1 HETATM 15 C C9 FMN . . . B 2 29.913 10.056 17.753 1 43.56 ? C9 FMN 390 A 1 HETATM 16 C C9A FMN . . . B 2 29.266 10.78 18.805 1 38.87 ? C9A FMN 390 A 1 HETATM 17 N N10 FMN . . . B 2 28.028 11.556 18.707 1 38.2 ? N10 FMN 390 A 1 HETATM 18 C C10 FMN . . . B 2 27.386 12.206 19.769 1 39.91 ? C10 FMN 390 A 1 HETATM 19 C C1' FMN . . . B 2 27.386 11.636 17.341 1 34.09 ? C1' FMN 390 A 1 HETATM 20 C C2' FMN . . . B 2 26.148 10.698 17.317 1 44.34 ? C2' FMN 390 A 1 HETATM 21 O O2' FMN . . . B 2 26.628 9.388 17.136 1 48.95 ? O2' FMN 390 A 1 HETATM 22 C C3' FMN . . . B 2 25.152 11.1 16.244 1 51.27 ? C3' FMN 390 A 1 HETATM 23 O O3' FMN . . . B 2 25.774 11.209 14.944 1 58.5 ? O3' FMN 390 A 1 HETATM 24 C C4' FMN . . . B 2 24.38 12.399 16.598 1 42.11 ? C4' FMN 390 A 1 HETATM 25 O O4' FMN . . . B 2 24.022 12.555 17.98 1 46.16 ? O4' FMN 390 A 1 HETATM 26 C C5' FMN . . . B 2 23.071 12.452 15.801 1 30.63 ? C5' FMN 390 A 1 HETATM 27 O O5' FMN . . . B 2 22.295 11.062 16.049 1 49.53 ? O5' FMN 390 A 1 HETATM 28 P P FMN . . . B 2 20.803 11.054 16.012 1 50.25 ? P FMN 390 A 1 HETATM 29 O O1P FMN . . . B 2 20.413 9.569 16.228 1 38.35 ? O1P FMN 390 A 1 HETATM 30 O O2P FMN . . . B 2 20.221 11.819 16.996 1 54.57 ? O2P FMN 390 A 1 HETATM 31 O O3P FMN . . . B 2 20.461 11.679 14.733 1 52.13 ? O3P FMN 390 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 31 #