data_5YOG # _model_server_result.job_id JzUgm7jnPGfXRyoXaYvfNw _model_server_result.datetime_utc '2024-12-25 02:34:15' _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 5yog # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5YOG # _exptl.entry_id 5YOG _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 101.63 _cell.angle_gamma 90 _cell.entry_id 5YOG _cell.length_a 32.607 _cell.length_b 56.321 _cell.length_c 41.418 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YOG _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _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 # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 14 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 14 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 93 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 93 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id A _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 2.07 _struct_conn.pdbx_value_order ? # _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 5YOG _atom_sites.fract_transf_matrix[1][1] 0.030668 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006314 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017755 _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] 0.024651 _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 1 201 1 FMN FMN . C 3 GOL A 1 202 1 GOL GOL . D 3 GOL A 1 203 2 GOL GOL . E 4 SO4 A 1 204 1 SO4 SO4 . F 5 HOH A 1 301 144 HOH HOH . F 5 HOH A 2 302 150 HOH HOH . F 5 HOH A 3 303 91 HOH HOH . F 5 HOH A 4 304 133 HOH HOH . F 5 HOH A 5 305 54 HOH HOH . F 5 HOH A 6 306 61 HOH HOH . F 5 HOH A 7 307 38 HOH HOH . F 5 HOH A 8 308 59 HOH HOH . F 5 HOH A 9 309 140 HOH HOH . F 5 HOH A 10 310 74 HOH HOH . F 5 HOH A 11 311 112 HOH HOH . F 5 HOH A 12 312 92 HOH HOH . F 5 HOH A 13 313 100 HOH HOH . F 5 HOH A 14 314 116 HOH HOH . F 5 HOH A 15 315 93 HOH HOH . F 5 HOH A 16 316 60 HOH HOH . F 5 HOH A 17 317 18 HOH HOH . F 5 HOH A 18 318 141 HOH HOH . F 5 HOH A 19 319 103 HOH HOH . F 5 HOH A 20 320 10 HOH HOH . F 5 HOH A 21 321 28 HOH HOH . F 5 HOH A 22 322 56 HOH HOH . F 5 HOH A 23 323 114 HOH HOH . F 5 HOH A 24 324 80 HOH HOH . F 5 HOH A 25 325 88 HOH HOH . F 5 HOH A 26 326 32 HOH HOH . F 5 HOH A 27 327 83 HOH HOH . F 5 HOH A 28 328 16 HOH HOH . F 5 HOH A 29 329 30 HOH HOH . F 5 HOH A 30 330 111 HOH HOH . F 5 HOH A 31 331 76 HOH HOH . F 5 HOH A 32 332 126 HOH HOH . F 5 HOH A 33 333 50 HOH HOH . F 5 HOH A 34 334 48 HOH HOH . F 5 HOH A 35 335 67 HOH HOH . F 5 HOH A 36 336 35 HOH HOH . F 5 HOH A 37 337 94 HOH HOH . F 5 HOH A 38 338 26 HOH HOH . F 5 HOH A 39 339 71 HOH HOH . F 5 HOH A 40 340 135 HOH HOH . F 5 HOH A 41 341 113 HOH HOH . F 5 HOH A 42 342 17 HOH HOH . F 5 HOH A 43 343 75 HOH HOH . F 5 HOH A 44 344 125 HOH HOH . F 5 HOH A 45 345 2 HOH HOH . F 5 HOH A 46 346 138 HOH HOH . F 5 HOH A 47 347 6 HOH HOH . F 5 HOH A 48 348 21 HOH HOH . F 5 HOH A 49 349 128 HOH HOH . F 5 HOH A 50 350 146 HOH HOH . F 5 HOH A 51 351 8 HOH HOH . F 5 HOH A 52 352 82 HOH HOH . F 5 HOH A 53 353 55 HOH HOH . F 5 HOH A 54 354 105 HOH HOH . F 5 HOH A 55 355 12 HOH HOH . F 5 HOH A 56 356 7 HOH HOH . F 5 HOH A 57 357 1 HOH HOH . F 5 HOH A 58 358 3 HOH HOH . F 5 HOH A 59 359 31 HOH HOH . F 5 HOH A 60 360 154 HOH HOH . F 5 HOH A 61 361 14 HOH HOH . F 5 HOH A 62 362 22 HOH HOH . F 5 HOH A 63 363 36 HOH HOH . F 5 HOH A 64 364 9 HOH HOH . F 5 HOH A 65 365 40 HOH HOH . F 5 HOH A 66 366 45 HOH HOH . F 5 HOH A 67 367 77 HOH HOH . F 5 HOH A 68 368 19 HOH HOH . F 5 HOH A 69 369 20 HOH HOH . F 5 HOH A 70 370 41 HOH HOH . F 5 HOH A 71 371 148 HOH HOH . F 5 HOH A 72 372 120 HOH HOH . F 5 HOH A 73 373 47 HOH HOH . F 5 HOH A 74 374 57 HOH HOH . F 5 HOH A 75 375 44 HOH HOH . F 5 HOH A 76 376 62 HOH HOH . F 5 HOH A 77 377 15 HOH HOH . F 5 HOH A 78 378 63 HOH HOH . F 5 HOH A 79 379 39 HOH HOH . F 5 HOH A 80 380 24 HOH HOH . F 5 HOH A 81 381 5 HOH HOH . F 5 HOH A 82 382 33 HOH HOH . F 5 HOH A 83 383 4 HOH HOH . F 5 HOH A 84 384 13 HOH HOH . F 5 HOH A 85 385 152 HOH HOH . F 5 HOH A 86 386 51 HOH HOH . F 5 HOH A 87 387 27 HOH HOH . F 5 HOH A 88 388 23 HOH HOH . F 5 HOH A 89 389 72 HOH HOH . F 5 HOH A 90 390 134 HOH HOH . F 5 HOH A 91 391 42 HOH HOH . F 5 HOH A 92 392 25 HOH HOH . F 5 HOH A 93 393 49 HOH HOH . F 5 HOH A 94 394 73 HOH HOH . F 5 HOH A 95 395 64 HOH HOH . F 5 HOH A 96 396 69 HOH HOH . F 5 HOH A 97 397 87 HOH HOH . F 5 HOH A 98 398 65 HOH HOH . F 5 HOH A 99 399 53 HOH HOH . F 5 HOH A 100 400 90 HOH HOH . F 5 HOH A 101 401 139 HOH HOH . F 5 HOH A 102 402 149 HOH HOH . F 5 HOH A 103 403 11 HOH HOH . F 5 HOH A 104 404 118 HOH HOH . F 5 HOH A 105 405 34 HOH HOH . F 5 HOH A 106 406 145 HOH HOH . F 5 HOH A 107 407 78 HOH HOH . F 5 HOH A 108 408 106 HOH HOH . F 5 HOH A 109 409 29 HOH HOH . F 5 HOH A 110 410 58 HOH HOH . F 5 HOH A 111 411 43 HOH HOH . F 5 HOH A 112 412 142 HOH HOH . F 5 HOH A 113 413 137 HOH HOH . F 5 HOH A 114 414 107 HOH HOH . F 5 HOH A 115 415 119 HOH HOH . F 5 HOH A 116 416 153 HOH HOH . F 5 HOH A 117 417 99 HOH HOH . F 5 HOH A 118 418 143 HOH HOH . F 5 HOH A 119 419 129 HOH HOH . F 5 HOH A 120 420 97 HOH HOH . F 5 HOH A 121 421 131 HOH HOH . F 5 HOH A 122 422 109 HOH HOH . F 5 HOH A 123 423 123 HOH HOH . F 5 HOH A 124 424 147 HOH HOH . F 5 HOH A 125 425 104 HOH HOH . F 5 HOH A 126 426 151 HOH HOH . F 5 HOH A 127 427 98 HOH HOH . F 5 HOH A 128 428 101 HOH HOH . F 5 HOH A 129 429 130 HOH HOH . F 5 HOH A 130 430 122 HOH HOH . F 5 HOH A 131 431 46 HOH HOH . F 5 HOH A 132 432 117 HOH HOH . F 5 HOH A 133 433 84 HOH HOH . F 5 HOH A 134 434 85 HOH HOH . F 5 HOH A 135 435 124 HOH HOH . F 5 HOH A 136 436 81 HOH HOH . F 5 HOH A 137 437 155 HOH HOH . F 5 HOH A 138 438 108 HOH HOH . F 5 HOH A 139 439 37 HOH HOH . F 5 HOH A 140 440 66 HOH HOH . F 5 HOH A 141 441 96 HOH HOH . F 5 HOH A 142 442 89 HOH HOH . F 5 HOH A 143 443 79 HOH HOH . F 5 HOH A 144 444 110 HOH HOH . F 5 HOH A 145 445 115 HOH HOH . F 5 HOH A 146 446 95 HOH HOH . F 5 HOH A 147 447 156 HOH HOH . F 5 HOH A 148 448 68 HOH HOH . F 5 HOH A 149 449 136 HOH HOH . F 5 HOH A 150 450 86 HOH HOH . F 5 HOH A 151 451 70 HOH HOH . F 5 HOH A 152 452 121 HOH HOH . F 5 HOH A 153 453 132 HOH HOH . F 5 HOH A 154 454 102 HOH HOH . F 5 HOH A 155 455 52 HOH HOH . F 5 HOH A 156 456 127 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 36.893 0.327 5.693 1 7.77 ? N1 FMN 201 A 1 HETATM 2 C C2 FMN . . . B 2 35.885 -0.588 5.696 1 8.1 ? C2 FMN 201 A 1 HETATM 3 O O2 FMN . . . B 2 35.577 -1.241 6.69 1 8.94 ? O2 FMN 201 A 1 HETATM 4 N N3 FMN . . . B 2 35.168 -0.738 4.524 1 6.82 ? N3 FMN 201 A 1 HETATM 5 C C4 FMN . . . B 2 35.429 -0.025 3.377 1 8.22 ? C4 FMN 201 A 1 HETATM 6 O O4 FMN . . . B 2 34.722 -0.173 2.348 1 9.64 ? O4 FMN 201 A 1 HETATM 7 C C4A FMN . . . B 2 36.482 0.873 3.408 1 6.93 ? C4A FMN 201 A 1 HETATM 8 N N5 FMN . . . B 2 36.804 1.65 2.262 1 8.82 ? N5 FMN 201 A 1 HETATM 9 C C5A FMN . . . B 2 37.811 2.574 2.35 1 9.11 ? C5A FMN 201 A 1 HETATM 10 C C6 FMN . . . B 2 38.058 3.385 1.257 1 10.23 ? C6 FMN 201 A 1 HETATM 11 C C7 FMN . . . B 2 39.049 4.356 1.367 1 10.33 ? C7 FMN 201 A 1 HETATM 12 C C7M FMN . . . B 2 39.332 5.236 0.141 1 12.54 ? C7M FMN 201 A 1 HETATM 13 C C8 FMN . . . B 2 39.776 4.534 2.521 1 10.24 ? C8 FMN 201 A 1 HETATM 14 C C8M FMN . . . B 2 40.87 5.584 2.64 1 13.67 ? C8M FMN 201 A 1 HETATM 15 C C9 FMN . . . B 2 39.501 3.734 3.609 1 9.54 ? C9 FMN 201 A 1 HETATM 16 C C9A FMN . . . B 2 38.492 2.785 3.541 1 8.15 ? C9A FMN 201 A 1 HETATM 17 N N10 FMN . . . B 2 38.242 1.94 4.659 1 7.94 ? N10 FMN 201 A 1 HETATM 18 C C10 FMN . . . B 2 37.194 1.046 4.591 1 7.59 ? C10 FMN 201 A 1 HETATM 19 C C1' FMN . . . B 2 38.98 2.109 5.953 1 7.26 ? C1' FMN 201 A 1 HETATM 20 C C2' FMN . . . B 2 40.218 1.284 6.198 1 9.35 ? C2' FMN 201 A 1 HETATM 21 O O2' FMN . . . B 2 40.235 -0.085 5.857 1 7.8 ? O2' FMN 201 A 1 HETATM 22 C C3' FMN . . . B 2 40.94 1.61 7.486 1 7.68 ? C3' FMN 201 A 1 HETATM 23 O O3' FMN . . . B 2 41.537 2.894 7.377 1 11.07 ? O3' FMN 201 A 1 HETATM 24 C C4' FMN . . . B 2 41.914 0.575 7.966 1 8.14 ? C4' FMN 201 A 1 HETATM 25 O O4' FMN . . . B 2 42.232 0.958 9.311 1 12.13 ? O4' FMN 201 A 1 HETATM 26 C C5' FMN . . . B 2 43.197 0.395 7.201 1 6.46 ? C5' FMN 201 A 1 HETATM 27 O O5' FMN . . . B 2 43.875 -0.762 7.751 1 6.31 ? O5' FMN 201 A 1 HETATM 28 P P FMN . . . B 2 45.38 -1.037 7.412 1 7.11 ? P FMN 201 A 1 HETATM 29 O O1P FMN . . . B 2 45.55 -1.003 5.926 1 8.26 ? O1P FMN 201 A 1 HETATM 30 O O2P FMN . . . B 2 46.212 0.012 8.092 1 9.51 ? O2P FMN 201 A 1 HETATM 31 O O3P FMN . . . B 2 45.66 -2.39 8.009 1 7.15 ? O3P FMN 201 A 1 HETATM 32 H H6 FMN . . . B 2 37.558 3.299 0.477 1 12.28 ? H6 FMN 201 A 1 HETATM 33 H HM71 FMN . . . B 2 39.149 6.163 0.36 1 15.04 ? HM71 FMN 201 A 1 HETATM 34 H HM72 FMN . . . B 2 40.262 5.142 -0.117 1 15.04 ? HM72 FMN 201 A 1 HETATM 35 H HM73 FMN . . . B 2 38.762 4.96 -0.594 1 15.04 ? HM73 FMN 201 A 1 HETATM 36 H HM81 FMN . . . B 2 41.225 5.579 3.543 1 16.4 ? HM81 FMN 201 A 1 HETATM 37 H HM82 FMN . . . B 2 41.58 5.383 2.011 1 16.4 ? HM82 FMN 201 A 1 HETATM 38 H HM83 FMN . . . B 2 40.501 6.459 2.442 1 16.4 ? HM83 FMN 201 A 1 HETATM 39 H H9 FMN . . . B 2 39.986 3.84 4.395 1 11.45 ? H9 FMN 201 A 1 HETATM 40 H "H1'1" FMN . . . B 2 38.356 1.918 6.67 1 8.71 ? "H1'1" FMN 201 A 1 HETATM 41 H "H1'2" FMN . . . B 2 39.233 3.042 6.024 1 8.71 ? "H1'2" FMN 201 A 1 HETATM 42 H H3' FMN . . . B 2 40.258 1.68 8.172 1 9.22 ? H3' FMN 201 A 1 HETATM 43 H HO3' FMN . . . B 2 41.226 3.403 7.983 1 13.29 ? HO3' FMN 201 A 1 HETATM 44 H H4' FMN . . . B 2 41.457 -0.28 7.994 1 9.77 ? H4' FMN 201 A 1 HETATM 45 H HO4' FMN . . . B 2 41.816 0.454 9.855 1 14.56 ? HO4' FMN 201 A 1 HETATM 46 H "H5'1" FMN . . . B 2 43.006 0.25 6.262 1 7.75 ? "H5'1" FMN 201 A 1 HETATM 47 H "H5'2" FMN . . . B 2 43.755 1.182 7.305 1 7.75 ? "H5'2" FMN 201 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 47 #