data_2RDT # _model_server_result.job_id DQbswesufhgkclaHoHNWSg _model_server_result.datetime_utc '2024-11-28 05:10:29' _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 2rdt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":364}' # _entry.id 2RDT # _exptl.entry_id 2RDT _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 90 _cell.entry_id 2RDT _cell.length_a 96.322 _cell.length_b 96.322 _cell.length_c 79.194 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2RDT _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 1,2,3,4 # 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' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 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 # _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 131 n n N1 C10 FMN doub 132 n n C2 O2 FMN doub 133 n n C2 N3 FMN sing 134 n n N3 C4 FMN sing 135 n n N3 HN3 FMN sing 136 n n C4 O4 FMN doub 137 n n C4 C4A FMN sing 138 n n C4A N5 FMN doub 139 n n C4A C10 FMN sing 140 n n N5 C5A FMN sing 141 n n C5A C6 FMN doub 142 n y C5A C9A FMN sing 143 n y C6 C7 FMN sing 144 n y C6 H6 FMN sing 145 n n C7 C7M FMN sing 146 n n C7 C8 FMN doub 147 n y C7M HM71 FMN sing 148 n n C7M HM72 FMN sing 149 n n C7M HM73 FMN sing 150 n n C8 C8M FMN sing 151 n n C8 C9 FMN sing 152 n y C8M HM81 FMN sing 153 n n C8M HM82 FMN sing 154 n n C8M HM83 FMN sing 155 n n C9 C9A FMN doub 156 n y C9 H9 FMN sing 157 n n C9A N10 FMN sing 158 n n N10 C10 FMN sing 159 n n N10 C1' FMN sing 160 n n C1' C2' FMN sing 161 n n C1' "H1'1" FMN sing 162 n n C1' "H1'2" FMN sing 163 n n C2' O2' FMN sing 164 n n C2' C3' FMN sing 165 n n C2' H2' FMN sing 166 n n O2' HO2' FMN sing 167 n n C3' O3' FMN sing 168 n n C3' C4' FMN sing 169 n n C3' H3' FMN sing 170 n n O3' HO3' FMN sing 171 n n C4' O4' FMN sing 172 n n C4' C5' FMN sing 173 n n C4' H4' FMN sing 174 n n O4' HO4' FMN sing 175 n n C5' O5' FMN sing 176 n n C5' "H5'1" FMN sing 177 n n C5' "H5'2" FMN sing 178 n n O5' P FMN sing 179 n n P O1P FMN doub 180 n n P O2P FMN sing 181 n n P O3P FMN sing 182 n n O2P HOP2 FMN sing 183 n n O3P HOP3 FMN sing 184 n n # _atom_sites.entry_id 2RDT _atom_sites.fract_transf_matrix[1][1] 0.010382 _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] 0.010382 _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] 0.012627 _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 1 364 364 FMN FMN . C 3 2RD A 1 365 365 2RD 2RD . D 4 HOH A 1 366 366 HOH HOH . D 4 HOH A 2 367 367 HOH HOH . D 4 HOH A 3 368 368 HOH HOH . D 4 HOH A 4 369 369 HOH HOH . D 4 HOH A 5 370 370 HOH HOH . D 4 HOH A 6 371 371 HOH HOH . D 4 HOH A 7 372 372 HOH HOH . D 4 HOH A 8 373 373 HOH HOH . D 4 HOH A 9 374 374 HOH HOH . D 4 HOH A 10 375 375 HOH HOH . D 4 HOH A 11 376 376 HOH HOH . D 4 HOH A 12 377 377 HOH HOH . D 4 HOH A 13 378 378 HOH HOH . D 4 HOH A 14 379 379 HOH HOH . D 4 HOH A 15 380 380 HOH HOH . D 4 HOH A 16 381 381 HOH HOH . D 4 HOH A 17 382 382 HOH HOH . D 4 HOH A 18 383 383 HOH HOH . D 4 HOH A 19 384 384 HOH HOH . D 4 HOH A 20 385 385 HOH HOH . D 4 HOH A 21 386 386 HOH HOH . D 4 HOH A 22 387 387 HOH HOH . D 4 HOH A 23 388 388 HOH HOH . D 4 HOH A 24 389 389 HOH HOH . D 4 HOH A 25 390 390 HOH HOH . D 4 HOH A 26 391 391 HOH HOH . D 4 HOH A 27 392 392 HOH HOH . D 4 HOH A 28 393 393 HOH HOH . D 4 HOH A 29 394 394 HOH HOH . D 4 HOH A 30 395 395 HOH HOH . D 4 HOH A 31 396 396 HOH HOH . D 4 HOH A 32 397 397 HOH HOH . D 4 HOH A 33 398 398 HOH HOH . D 4 HOH A 34 399 399 HOH HOH . D 4 HOH A 35 400 400 HOH HOH . D 4 HOH A 36 401 401 HOH HOH . D 4 HOH A 37 402 402 HOH HOH . D 4 HOH A 38 403 403 HOH HOH . D 4 HOH A 39 404 404 HOH HOH . D 4 HOH A 40 405 405 HOH HOH . D 4 HOH A 41 406 406 HOH HOH . D 4 HOH A 42 407 407 HOH HOH . D 4 HOH A 43 408 408 HOH HOH . D 4 HOH A 44 409 409 HOH HOH . D 4 HOH A 45 410 410 HOH HOH . D 4 HOH A 46 411 411 HOH HOH . D 4 HOH A 47 412 412 HOH HOH . D 4 HOH A 48 413 413 HOH HOH . D 4 HOH A 49 414 414 HOH HOH . D 4 HOH A 50 415 415 HOH HOH . D 4 HOH A 51 416 416 HOH HOH . D 4 HOH A 52 417 417 HOH HOH . D 4 HOH A 53 418 418 HOH HOH . D 4 HOH A 54 419 419 HOH HOH . D 4 HOH A 55 420 420 HOH HOH . D 4 HOH A 56 421 421 HOH HOH . D 4 HOH A 57 422 422 HOH HOH . D 4 HOH A 58 423 423 HOH HOH . D 4 HOH A 59 424 424 HOH HOH . D 4 HOH A 60 425 425 HOH HOH . D 4 HOH A 61 426 426 HOH HOH . D 4 HOH A 62 427 427 HOH HOH . D 4 HOH A 63 428 428 HOH HOH . D 4 HOH A 64 429 429 HOH HOH . D 4 HOH A 65 430 430 HOH HOH . D 4 HOH A 66 431 431 HOH HOH . D 4 HOH A 67 432 432 HOH HOH . D 4 HOH A 68 433 433 HOH HOH . D 4 HOH A 69 434 434 HOH HOH . D 4 HOH A 70 435 435 HOH HOH . D 4 HOH A 71 436 436 HOH HOH . D 4 HOH A 72 437 437 HOH HOH . D 4 HOH A 73 438 438 HOH HOH . D 4 HOH A 74 439 439 HOH HOH . D 4 HOH A 75 440 440 HOH HOH . D 4 HOH A 76 441 441 HOH HOH . D 4 HOH A 77 442 442 HOH HOH . D 4 HOH A 78 443 443 HOH HOH . D 4 HOH A 79 444 444 HOH HOH . D 4 HOH A 80 445 445 HOH HOH . D 4 HOH A 81 446 446 HOH HOH . D 4 HOH A 82 447 447 HOH HOH . D 4 HOH A 83 448 448 HOH HOH . D 4 HOH A 84 449 449 HOH HOH . D 4 HOH A 85 450 450 HOH HOH . D 4 HOH A 86 451 451 HOH HOH . D 4 HOH A 87 452 452 HOH HOH . D 4 HOH A 88 453 453 HOH HOH . D 4 HOH A 89 454 454 HOH HOH . D 4 HOH A 90 455 455 HOH HOH . D 4 HOH A 91 456 456 HOH HOH . D 4 HOH A 92 457 457 HOH HOH . D 4 HOH A 93 458 458 HOH HOH . D 4 HOH A 94 459 459 HOH HOH . D 4 HOH A 95 460 460 HOH HOH . D 4 HOH A 96 461 461 HOH HOH . D 4 HOH A 97 462 462 HOH HOH . D 4 HOH A 98 463 463 HOH HOH . D 4 HOH A 99 464 464 HOH HOH . D 4 HOH A 100 465 465 HOH HOH . D 4 HOH A 101 466 466 HOH HOH . D 4 HOH A 102 467 467 HOH HOH . D 4 HOH A 103 468 468 HOH HOH . D 4 HOH A 104 469 469 HOH HOH . D 4 HOH A 105 470 470 HOH HOH . D 4 HOH A 106 471 471 HOH HOH . D 4 HOH A 107 472 472 HOH HOH . D 4 HOH A 108 473 473 HOH HOH . D 4 HOH A 109 474 474 HOH HOH . D 4 HOH A 110 475 475 HOH HOH . D 4 HOH A 111 476 476 HOH HOH . D 4 HOH A 112 477 477 HOH HOH . D 4 HOH A 113 478 478 HOH HOH . D 4 HOH A 114 479 479 HOH HOH . D 4 HOH A 115 480 480 HOH HOH . D 4 HOH A 116 481 481 HOH HOH . D 4 HOH A 117 482 482 HOH HOH . D 4 HOH A 118 483 483 HOH HOH . D 4 HOH A 119 484 484 HOH HOH . D 4 HOH A 120 485 485 HOH HOH . D 4 HOH A 121 486 486 HOH HOH . D 4 HOH A 122 487 487 HOH HOH . D 4 HOH A 123 488 488 HOH HOH . D 4 HOH A 124 489 489 HOH HOH . D 4 HOH A 125 490 490 HOH HOH . D 4 HOH A 126 491 491 HOH HOH . D 4 HOH A 127 492 492 HOH HOH . D 4 HOH A 128 493 493 HOH HOH . D 4 HOH A 129 494 494 HOH HOH . D 4 HOH A 130 495 495 HOH HOH . D 4 HOH A 131 496 496 HOH HOH . D 4 HOH A 132 497 497 HOH HOH . D 4 HOH A 133 498 498 HOH HOH . D 4 HOH A 134 499 499 HOH HOH . D 4 HOH A 135 500 500 HOH HOH . D 4 HOH A 136 501 501 HOH HOH . D 4 HOH A 137 502 502 HOH HOH . D 4 HOH A 138 503 503 HOH HOH . D 4 HOH A 139 504 504 HOH HOH . D 4 HOH A 140 505 505 HOH HOH . D 4 HOH A 141 506 506 HOH HOH . D 4 HOH A 142 507 507 HOH HOH . D 4 HOH A 143 508 508 HOH HOH . D 4 HOH A 144 509 509 HOH HOH . D 4 HOH A 145 510 510 HOH HOH . D 4 HOH A 146 511 511 HOH HOH . D 4 HOH A 147 512 512 HOH HOH . D 4 HOH A 148 513 513 HOH HOH . D 4 HOH A 149 514 514 HOH HOH . D 4 HOH A 150 515 515 HOH HOH . D 4 HOH A 151 516 516 HOH HOH . D 4 HOH A 152 517 517 HOH HOH . D 4 HOH A 153 518 518 HOH HOH . D 4 HOH A 154 519 519 HOH HOH . D 4 HOH A 155 520 520 HOH HOH . D 4 HOH A 156 521 521 HOH HOH . D 4 HOH A 157 522 522 HOH HOH . D 4 HOH A 158 523 523 HOH HOH . D 4 HOH A 159 524 524 HOH HOH . D 4 HOH A 160 525 525 HOH HOH . D 4 HOH A 161 526 526 HOH HOH . D 4 HOH A 162 527 527 HOH HOH . D 4 HOH A 163 528 528 HOH HOH . D 4 HOH A 164 529 529 HOH HOH . D 4 HOH A 165 530 530 HOH HOH . D 4 HOH A 166 531 531 HOH HOH . D 4 HOH A 167 532 532 HOH HOH . D 4 HOH A 168 533 533 HOH HOH . D 4 HOH A 169 534 534 HOH HOH . D 4 HOH A 170 535 535 HOH HOH . D 4 HOH A 171 536 536 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 29.893 8.813 18.175 1 26.18 ? N1 FMN 364 A 1 HETATM 2 C C2 FMN . . . B 2 31.211 8.909 18.574 1 23.2 ? C2 FMN 364 A 1 HETATM 3 O O2 FMN . . . B 2 31.46 8.937 19.771 1 24.26 ? O2 FMN 364 A 1 HETATM 4 N N3 FMN . . . B 2 32.226 8.992 17.614 1 24.61 ? N3 FMN 364 A 1 HETATM 5 C C4 FMN . . . B 2 31.919 8.96 16.252 1 25.15 ? C4 FMN 364 A 1 HETATM 6 O O4 FMN . . . B 2 32.84 9.034 15.438 1 25.7 ? O4 FMN 364 A 1 HETATM 7 C C4A FMN . . . B 2 30.585 8.835 15.851 1 24.87 ? C4A FMN 364 A 1 HETATM 8 N N5 FMN . . . B 2 30.251 8.761 14.491 1 24.12 ? N5 FMN 364 A 1 HETATM 9 C C5A FMN . . . B 2 28.909 8.749 14.103 1 24.49 ? C5A FMN 364 A 1 HETATM 10 C C6 FMN . . . B 2 28.567 8.808 12.739 1 22.82 ? C6 FMN 364 A 1 HETATM 11 C C7 FMN . . . B 2 27.218 8.825 12.384 1 23.46 ? C7 FMN 364 A 1 HETATM 12 C C7M FMN . . . B 2 26.84 8.897 10.878 1 23.64 ? C7M FMN 364 A 1 HETATM 13 C C8 FMN . . . B 2 26.226 8.772 13.381 1 24.75 ? C8 FMN 364 A 1 HETATM 14 C C8M FMN . . . B 2 24.725 8.793 13.066 1 23.23 ? C8M FMN 364 A 1 HETATM 15 C C9 FMN . . . B 2 26.573 8.719 14.723 1 23.2 ? C9 FMN 364 A 1 HETATM 16 C C9A FMN . . . B 2 27.909 8.69 15.084 1 24.13 ? C9A FMN 364 A 1 HETATM 17 N N10 FMN . . . B 2 28.242 8.669 16.449 1 23.33 ? N10 FMN 364 A 1 HETATM 18 C C10 FMN . . . B 2 29.576 8.743 16.815 1 23.81 ? C10 FMN 364 A 1 HETATM 19 C C1' FMN . . . B 2 27.17 8.729 17.476 1 23.9 ? C1' FMN 364 A 1 HETATM 20 C C2' FMN . . . B 2 26.859 10.208 17.766 1 23.28 ? C2' FMN 364 A 1 HETATM 21 O O2' FMN . . . B 2 27.936 10.828 18.5 1 24.95 ? O2' FMN 364 A 1 HETATM 22 C C3' FMN . . . B 2 25.54 10.417 18.513 1 21.48 ? C3' FMN 364 A 1 HETATM 23 O O3' FMN . . . B 2 25.471 9.68 19.761 1 19.7 ? O3' FMN 364 A 1 HETATM 24 C C4' FMN . . . B 2 24.311 10.137 17.654 1 20.62 ? C4' FMN 364 A 1 HETATM 25 O O4' FMN . . . B 2 24.491 10.525 16.282 1 21.25 ? O4' FMN 364 A 1 HETATM 26 C C5' FMN . . . B 2 23.205 11.015 18.209 1 22.29 ? C5' FMN 364 A 1 HETATM 27 O O5' FMN . . . B 2 21.986 10.574 17.732 1 18.5 ? O5' FMN 364 A 1 HETATM 28 P P FMN . . . B 2 21.093 11.226 16.536 1 19.04 ? P FMN 364 A 1 HETATM 29 O O1P FMN . . . B 2 19.85 10.466 16.387 1 19.22 ? O1P FMN 364 A 1 HETATM 30 O O2P FMN . . . B 2 21.898 10.924 15.317 1 18 ? O2P FMN 364 A 1 HETATM 31 O O3P FMN . . . B 2 21.201 12.617 16.782 1 17.02 ? O3P FMN 364 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #