data_8QYT # _model_server_result.job_id F-a37LQcy-zG0_LlLIWbHw _model_server_result.datetime_utc '2025-03-11 07:00:16' _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 8qyt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 8QYT # _exptl.entry_id 8QYT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 456.344 _entity.id 3 _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 8QYT _cell.length_a 82.48 _cell.length_b 82.48 _cell.length_c 59.19 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8QYT _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 _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' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _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 75 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 72 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id S2 _struct_conn.ptnr2_label_comp_id BME _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id BME _struct_conn.ptnr2_auth_seq_id 301 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id ? _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 2.047 _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 92 n n N1 C10 FMN doub 93 n n C2 O2 FMN doub 94 n n C2 N3 FMN sing 95 n n N3 C4 FMN sing 96 n n N3 HN3 FMN sing 97 n n C4 O4 FMN doub 98 n n C4 C4A FMN sing 99 n n C4A N5 FMN doub 100 n n C4A C10 FMN sing 101 n n N5 C5A FMN sing 102 n n C5A C6 FMN doub 103 n y C5A C9A FMN sing 104 n y C6 C7 FMN sing 105 n y C6 H6 FMN sing 106 n n C7 C7M FMN sing 107 n n C7 C8 FMN doub 108 n y C7M HM71 FMN sing 109 n n C7M HM72 FMN sing 110 n n C7M HM73 FMN sing 111 n n C8 C8M FMN sing 112 n n C8 C9 FMN sing 113 n y C8M HM81 FMN sing 114 n n C8M HM82 FMN sing 115 n n C8M HM83 FMN sing 116 n n C9 C9A FMN doub 117 n y C9 H9 FMN sing 118 n n C9A N10 FMN sing 119 n n N10 C10 FMN sing 120 n n N10 C1' FMN sing 121 n n C1' C2' FMN sing 122 n n C1' "H1'1" FMN sing 123 n n C1' "H1'2" FMN sing 124 n n C2' O2' FMN sing 125 n n C2' C3' FMN sing 126 n n C2' H2' FMN sing 127 n n O2' HO2' FMN sing 128 n n C3' O3' FMN sing 129 n n C3' C4' FMN sing 130 n n C3' H3' FMN sing 131 n n O3' HO3' FMN sing 132 n n C4' O4' FMN sing 133 n n C4' C5' FMN sing 134 n n C4' H4' FMN sing 135 n n O4' HO4' FMN sing 136 n n C5' O5' FMN sing 137 n n C5' "H5'1" FMN sing 138 n n C5' "H5'2" FMN sing 139 n n O5' P FMN sing 140 n n P O1P FMN doub 141 n n P O2P FMN sing 142 n n P O3P FMN sing 143 n n O2P HOP2 FMN sing 144 n n O3P HOP3 FMN sing 145 n n # _atom_sites.entry_id 8QYT _atom_sites.fract_transf_matrix[1][1] 0.012124 _atom_sites.fract_transf_matrix[1][2] 0.007 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014 _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] 0.016895 _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 BME A 1 301 301 BME BME . C 3 FMN A 1 302 300 FMN FMN . D 4 PLP A 1 303 320 PLP PLP . E 5 NA A 1 304 1 NA NA . F 6 HOH A 1 401 68 HOH HOH . F 6 HOH A 2 402 146 HOH HOH . F 6 HOH A 3 403 73 HOH HOH . F 6 HOH A 4 404 124 HOH HOH . F 6 HOH A 5 405 144 HOH HOH . F 6 HOH A 6 406 138 HOH HOH . F 6 HOH A 7 407 118 HOH HOH . F 6 HOH A 8 408 21 HOH HOH . F 6 HOH A 9 409 11 HOH HOH . F 6 HOH A 10 410 16 HOH HOH . F 6 HOH A 11 411 10 HOH HOH . F 6 HOH A 12 412 51 HOH HOH . F 6 HOH A 13 413 112 HOH HOH . F 6 HOH A 14 414 89 HOH HOH . F 6 HOH A 15 415 39 HOH HOH . F 6 HOH A 16 416 87 HOH HOH . F 6 HOH A 17 417 111 HOH HOH . F 6 HOH A 18 418 107 HOH HOH . F 6 HOH A 19 419 63 HOH HOH . F 6 HOH A 20 420 35 HOH HOH . F 6 HOH A 21 421 65 HOH HOH . F 6 HOH A 22 422 119 HOH HOH . F 6 HOH A 23 423 3 HOH HOH . F 6 HOH A 24 424 13 HOH HOH . F 6 HOH A 25 425 43 HOH HOH . F 6 HOH A 26 426 49 HOH HOH . F 6 HOH A 27 427 76 HOH HOH . F 6 HOH A 28 428 125 HOH HOH . F 6 HOH A 29 429 50 HOH HOH . F 6 HOH A 30 430 98 HOH HOH . F 6 HOH A 31 431 143 HOH HOH . F 6 HOH A 32 432 14 HOH HOH . F 6 HOH A 33 433 75 HOH HOH . F 6 HOH A 34 434 8 HOH HOH . F 6 HOH A 35 435 2 HOH HOH . F 6 HOH A 36 436 56 HOH HOH . F 6 HOH A 37 437 9 HOH HOH . F 6 HOH A 38 438 15 HOH HOH . F 6 HOH A 39 439 121 HOH HOH . F 6 HOH A 40 440 61 HOH HOH . F 6 HOH A 41 441 6 HOH HOH . F 6 HOH A 42 442 60 HOH HOH . F 6 HOH A 43 443 102 HOH HOH . F 6 HOH A 44 444 18 HOH HOH . F 6 HOH A 45 445 40 HOH HOH . F 6 HOH A 46 446 91 HOH HOH . F 6 HOH A 47 447 23 HOH HOH . F 6 HOH A 48 448 19 HOH HOH . F 6 HOH A 49 449 94 HOH HOH . F 6 HOH A 50 450 129 HOH HOH . F 6 HOH A 51 451 99 HOH HOH . F 6 HOH A 52 452 145 HOH HOH . F 6 HOH A 53 453 142 HOH HOH . F 6 HOH A 54 454 44 HOH HOH . F 6 HOH A 55 455 52 HOH HOH . F 6 HOH A 56 456 115 HOH HOH . F 6 HOH A 57 457 48 HOH HOH . F 6 HOH A 58 458 131 HOH HOH . F 6 HOH A 59 459 47 HOH HOH . F 6 HOH A 60 460 81 HOH HOH . F 6 HOH A 61 461 97 HOH HOH . F 6 HOH A 62 462 105 HOH HOH . F 6 HOH A 63 463 24 HOH HOH . F 6 HOH A 64 464 45 HOH HOH . F 6 HOH A 65 465 123 HOH HOH . F 6 HOH A 66 466 17 HOH HOH . F 6 HOH A 67 467 53 HOH HOH . F 6 HOH A 68 468 84 HOH HOH . F 6 HOH A 69 469 55 HOH HOH . F 6 HOH A 70 470 80 HOH HOH . F 6 HOH A 71 471 82 HOH HOH . F 6 HOH A 72 472 103 HOH HOH . F 6 HOH A 73 473 79 HOH HOH . F 6 HOH A 74 474 117 HOH HOH . F 6 HOH A 75 475 5 HOH HOH . F 6 HOH A 76 476 1 HOH HOH . F 6 HOH A 77 477 22 HOH HOH . F 6 HOH A 78 478 12 HOH HOH . F 6 HOH A 79 479 25 HOH HOH . F 6 HOH A 80 480 106 HOH HOH . F 6 HOH A 81 481 42 HOH HOH . F 6 HOH A 82 482 36 HOH HOH . F 6 HOH A 83 483 149 HOH HOH . F 6 HOH A 84 484 140 HOH HOH . F 6 HOH A 85 485 37 HOH HOH . F 6 HOH A 86 486 58 HOH HOH . F 6 HOH A 87 487 85 HOH HOH . F 6 HOH A 88 488 62 HOH HOH . F 6 HOH A 89 489 95 HOH HOH . F 6 HOH A 90 490 59 HOH HOH . F 6 HOH A 91 491 110 HOH HOH . F 6 HOH A 92 492 88 HOH HOH . F 6 HOH A 93 493 33 HOH HOH . F 6 HOH A 94 494 64 HOH HOH . F 6 HOH A 95 495 66 HOH HOH . F 6 HOH A 96 496 46 HOH HOH . F 6 HOH A 97 497 122 HOH HOH . F 6 HOH A 98 498 104 HOH HOH . F 6 HOH A 99 499 83 HOH HOH . F 6 HOH A 100 500 147 HOH HOH . F 6 HOH A 101 501 41 HOH HOH . F 6 HOH A 102 502 77 HOH HOH . F 6 HOH A 103 503 78 HOH HOH . F 6 HOH A 104 504 27 HOH HOH . F 6 HOH A 105 505 137 HOH HOH . F 6 HOH A 106 506 54 HOH HOH . F 6 HOH A 107 507 34 HOH HOH . F 6 HOH A 108 508 127 HOH HOH . F 6 HOH A 109 509 86 HOH HOH . F 6 HOH A 110 510 90 HOH HOH . F 6 HOH A 111 511 71 HOH HOH . F 6 HOH A 112 512 96 HOH HOH . F 6 HOH A 113 513 92 HOH HOH . F 6 HOH A 114 514 120 HOH HOH . F 6 HOH A 115 515 126 HOH HOH . F 6 HOH A 116 516 139 HOH HOH . F 6 HOH A 117 517 72 HOH HOH . F 6 HOH A 118 518 141 HOH HOH . F 6 HOH A 119 519 93 HOH HOH . F 6 HOH A 120 520 38 HOH HOH . F 6 HOH A 121 521 67 HOH HOH . F 6 HOH A 122 522 70 HOH HOH . F 6 HOH A 123 523 20 HOH HOH . F 6 HOH A 124 524 7 HOH HOH . F 6 HOH A 125 525 4 HOH HOH . F 6 HOH A 126 526 28 HOH HOH . F 6 HOH A 127 527 26 HOH HOH . F 6 HOH A 128 528 136 HOH HOH . F 6 HOH A 129 529 113 HOH HOH . F 6 HOH A 130 530 116 HOH HOH . F 6 HOH A 131 531 134 HOH HOH . F 6 HOH A 132 532 135 HOH HOH . F 6 HOH A 133 533 132 HOH HOH . F 6 HOH A 134 534 74 HOH HOH . F 6 HOH A 135 535 32 HOH HOH . F 6 HOH A 136 536 133 HOH HOH . F 6 HOH A 137 537 148 HOH HOH . F 6 HOH A 138 538 109 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 . . . C 3 -24.704 -16.653 -0.397 1 24 ? N1 FMN 302 A 1 HETATM 2 C C2 FMN . . . C 3 -24.913 -15.849 -1.462 1 24.8 ? C2 FMN 302 A 1 HETATM 3 O O2 FMN . . . C 3 -25.026 -14.596 -1.358 1 26.48 ? O2 FMN 302 A 1 HETATM 4 N N3 FMN . . . C 3 -25.011 -16.382 -2.717 1 24.29 ? N3 FMN 302 A 1 HETATM 5 C C4 FMN . . . C 3 -25.012 -17.742 -2.954 1 25.21 ? C4 FMN 302 A 1 HETATM 6 O O4 FMN . . . C 3 -25.023 -18.141 -4.138 1 26.65 ? O4 FMN 302 A 1 HETATM 7 C C4A FMN . . . C 3 -24.808 -18.591 -1.87 1 24.08 ? C4A FMN 302 A 1 HETATM 8 N N5 FMN . . . C 3 -24.795 -19.906 -2.064 1 26.23 ? N5 FMN 302 A 1 HETATM 9 C C5A FMN . . . C 3 -24.511 -20.683 -0.966 1 23.2 ? C5A FMN 302 A 1 HETATM 10 C C6 FMN . . . C 3 -24.344 -22.069 -1.141 1 22.72 ? C6 FMN 302 A 1 HETATM 11 C C7 FMN . . . C 3 -23.965 -22.891 -0.116 1 23.27 ? C7 FMN 302 A 1 HETATM 12 C C7M FMN . . . C 3 -23.721 -24.359 -0.41 1 26.94 ? C7M FMN 302 A 1 HETATM 13 C C8 FMN . . . C 3 -23.826 -22.36 1.171 1 22 ? C8 FMN 302 A 1 HETATM 14 C C8M FMN . . . C 3 -23.453 -23.256 2.328 1 25.21 ? C8M FMN 302 A 1 HETATM 15 C C9 FMN . . . C 3 -24.039 -21 1.383 1 23.7 ? C9 FMN 302 A 1 HETATM 16 C C9A FMN . . . C 3 -24.387 -20.142 0.344 1 24.58 ? C9A FMN 302 A 1 HETATM 17 N N10 FMN . . . C 3 -24.501 -18.766 0.502 1 23.8 ? N10 FMN 302 A 1 HETATM 18 C C10 FMN . . . C 3 -24.687 -17.963 -0.582 1 24.33 ? C10 FMN 302 A 1 HETATM 19 C C1' FMN . . . C 3 -24.266 -18.103 1.811 1 25.4 ? C1' FMN 302 A 1 HETATM 20 C C2' FMN . . . C 3 -22.783 -17.676 1.997 1 24.34 ? C2' FMN 302 A 1 HETATM 21 O O2' FMN . . . C 3 -21.957 -18.779 2.409 1 24.64 ? O2' FMN 302 A 1 HETATM 22 C C3' FMN . . . C 3 -22.614 -16.529 3.008 1 24.58 ? C3' FMN 302 A 1 HETATM 23 O O3' FMN . . . C 3 -23.261 -16.851 4.255 1 24.85 ? O3' FMN 302 A 1 HETATM 24 C C4' FMN . . . C 3 -23.206 -15.205 2.565 1 25.86 ? C4' FMN 302 A 1 HETATM 25 O O4' FMN . . . C 3 -23.053 -15.053 1.157 1 24.31 ? O4' FMN 302 A 1 HETATM 26 C C5' FMN . . . C 3 -22.551 -14.056 3.286 1 23.7 ? C5' FMN 302 A 1 HETATM 27 O O5' FMN . . . C 3 -21.13 -14.059 3.102 1 25.02 ? O5' FMN 302 A 1 HETATM 28 P P FMN . . . C 3 -20.297 -12.717 3.456 1 26.27 ? P FMN 302 A 1 HETATM 29 O O1P FMN . . . C 3 -18.896 -13.151 3.329 1 25.43 ? O1P FMN 302 A 1 HETATM 30 O O2P FMN . . . C 3 -20.688 -11.646 2.428 1 28.71 ? O2P FMN 302 A 1 HETATM 31 O O3P FMN . . . C 3 -20.729 -12.34 4.879 1 27.54 ? O3P FMN 302 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 573 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 31 #