data_4ZAX # _model_server_result.job_id NkV7YTJANX4amE4qZ1Uy6g _model_server_result.datetime_utc '2024-11-24 18:02:32' _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 4zax # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 4ZAX # _exptl.entry_id 4ZAX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 525.469 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '1-deoxy-5-O-phosphono-1-(3,3,4,5-tetramethyl-9,11-dioxo-2,3,8,9,10,11-hexahydro-7H-quinolino[1,8-fg]pteridin-12-ium-7-y l)-D-ribitol' _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 4ZAX _cell.length_a 141.79 _cell.length_b 141.79 _cell.length_c 141.79 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZAX _symmetry.cell_setting ? _symmetry.Int_Tables_number 196 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'F 2 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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 1,2,3,4,5,6,7,8,9,10,11,12 # 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 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 5 'crystal symmetry operation' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 6 'crystal symmetry operation' 6_555 z,-x,-y 0 0 1 -1 0 0 0 -1 0 0 0 0 7 'crystal symmetry operation' 7_555 -z,-x,y 0 0 -1 -1 0 0 0 1 0 0 0 0 8 'crystal symmetry operation' 8_555 -z,x,-y 0 0 -1 1 0 0 0 -1 0 0 0 0 9 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 10 'crystal symmetry operation' 10_555 -y,z,-x 0 -1 0 0 0 1 -1 0 0 0 0 0 11 'crystal symmetry operation' 11_555 y,-z,-x 0 1 0 0 0 -1 -1 0 0 0 0 0 12 'crystal symmetry operation' 12_555 -y,-z,x 0 -1 0 0 0 -1 1 0 0 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 'C22 H30 N4 O9 P 1' _chem_comp.formula_weight 525.469 _chem_comp.id 4LU _chem_comp.mon_nstd_flag . _chem_comp.name '1-deoxy-5-O-phosphono-1-(3,3,4,5-tetramethyl-9,11-dioxo-2,3,8,9,10,11-hexahydro-7H-quinolino[1,8-fg]pteridin-12-ium-7-y l)-D-ribitol' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'prenylated-FMN iminium form' # 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 C7M C7 4LU sing 1 n n C12 C5 4LU sing 2 n n C8M C8 4LU sing 3 n n C7 C8 4LU doub 4 n y C7 C6 4LU sing 5 n y C8 C9 4LU sing 6 n y C13 C5 4LU sing 7 n n C5 C6 4LU sing 8 n n C5 C3 4LU sing 9 n n C6 C5A 4LU doub 10 n y C9 C9A 4LU doub 11 n y C3 C1 4LU sing 12 n n C5A C9A 4LU sing 13 n y C5A N5 4LU sing 14 n n C9A N10 4LU sing 15 n n C1 N5 4LU doub 16 n n N5 C4A 4LU sing 17 n n O2' C2' 4LU sing 18 n n N10 C1' 4LU sing 19 n n N10 C10 4LU sing 20 n n C4A C10 4LU doub 21 n n C4A C4 4LU sing 22 n n C1' C2' 4LU sing 23 n n C10 N1 4LU sing 24 n n C2' C3' 4LU sing 25 n n O4 C4 4LU doub 26 n n C3' C4' 4LU sing 27 n n C3' O3' 4LU sing 28 n n C4 N3 4LU sing 29 n n C4' O4' 4LU sing 30 n n C4' C5' 4LU sing 31 n n O5' C5' 4LU sing 32 n n O5' P 4LU sing 33 n n N1 C2 4LU sing 34 n n N3 C2 4LU sing 35 n n O2P P 4LU doub 36 n n C2 O2 4LU doub 37 n n P O3P 4LU sing 38 n n P O1P 4LU sing 39 n n C9 H1 4LU sing 40 n n N3 H2 4LU sing 41 n n C13 H3 4LU sing 42 n n C13 H4 4LU sing 43 n n C13 H5 4LU sing 44 n n C1 H6 4LU sing 45 n n C3 H9 4LU sing 46 n n C3 H10 4LU sing 47 n n C12 H11 4LU sing 48 n n C12 H12 4LU sing 49 n n C12 H13 4LU sing 50 n n C7M H14 4LU sing 51 n n C7M H15 4LU sing 52 n n C7M H16 4LU sing 53 n n C8M H17 4LU sing 54 n n C8M H18 4LU sing 55 n n C8M H19 4LU sing 56 n n C1' H20 4LU sing 57 n n C1' H21 4LU sing 58 n n C2' H22 4LU sing 59 n n O2' H23 4LU sing 60 n n C3' H24 4LU sing 61 n n O3' H25 4LU sing 62 n n C4' H26 4LU sing 63 n n O4' H27 4LU sing 64 n n C5' H28 4LU sing 65 n n C5' H29 4LU sing 66 n n O3P H30 4LU sing 67 n n O1P H31 4LU sing 68 n n N1 H7 4LU sing 69 n n # _atom_sites.entry_id 4ZAX _atom_sites.fract_transf_matrix[1][1] 0.007053 _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] 0.007053 _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] 0.007053 _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 4LU A 1 301 1 4LU FMQ . C 3 SCN A 1 302 1 SCN SCN . D 3 SCN A 1 303 2 SCN SCN . E 3 SCN A 1 304 3 SCN SCN . F 4 PO4 A 1 305 4 PO4 PO4 . G 5 HOH A 1 401 114 HOH HOH . G 5 HOH A 2 402 80 HOH HOH . G 5 HOH A 3 403 115 HOH HOH . G 5 HOH A 4 404 72 HOH HOH . G 5 HOH A 5 405 82 HOH HOH . G 5 HOH A 6 406 62 HOH HOH . G 5 HOH A 7 407 81 HOH HOH . G 5 HOH A 8 408 53 HOH HOH . G 5 HOH A 9 409 97 HOH HOH . G 5 HOH A 10 410 125 HOH HOH . G 5 HOH A 11 411 127 HOH HOH . G 5 HOH A 12 412 73 HOH HOH . G 5 HOH A 13 413 132 HOH HOH . G 5 HOH A 14 414 86 HOH HOH . G 5 HOH A 15 415 74 HOH HOH . G 5 HOH A 16 416 113 HOH HOH . G 5 HOH A 17 417 92 HOH HOH . G 5 HOH A 18 418 67 HOH HOH . G 5 HOH A 19 419 45 HOH HOH . G 5 HOH A 20 420 101 HOH HOH . G 5 HOH A 21 421 60 HOH HOH . G 5 HOH A 22 422 66 HOH HOH . G 5 HOH A 23 423 98 HOH HOH . G 5 HOH A 24 424 20 HOH HOH . G 5 HOH A 25 425 31 HOH HOH . G 5 HOH A 26 426 32 HOH HOH . G 5 HOH A 27 427 94 HOH HOH . G 5 HOH A 28 428 121 HOH HOH . G 5 HOH A 29 429 124 HOH HOH . G 5 HOH A 30 430 16 HOH HOH . G 5 HOH A 31 431 120 HOH HOH . G 5 HOH A 32 432 54 HOH HOH . G 5 HOH A 33 433 34 HOH HOH . G 5 HOH A 34 434 117 HOH HOH . G 5 HOH A 35 435 76 HOH HOH . G 5 HOH A 36 436 6 HOH HOH . G 5 HOH A 37 437 41 HOH HOH . G 5 HOH A 38 438 52 HOH HOH . G 5 HOH A 39 439 15 HOH HOH . G 5 HOH A 40 440 2 HOH HOH . G 5 HOH A 41 441 68 HOH HOH . G 5 HOH A 42 442 71 HOH HOH . G 5 HOH A 43 443 91 HOH HOH . G 5 HOH A 44 444 40 HOH HOH . G 5 HOH A 45 445 84 HOH HOH . G 5 HOH A 46 446 129 HOH HOH . G 5 HOH A 47 447 18 HOH HOH . G 5 HOH A 48 448 57 HOH HOH . G 5 HOH A 49 449 24 HOH HOH . G 5 HOH A 50 450 126 HOH HOH . G 5 HOH A 51 451 100 HOH HOH . G 5 HOH A 52 452 130 HOH HOH . G 5 HOH A 53 453 9 HOH HOH . G 5 HOH A 54 454 4 HOH HOH . G 5 HOH A 55 455 7 HOH HOH . G 5 HOH A 56 456 70 HOH HOH . G 5 HOH A 57 457 25 HOH HOH . G 5 HOH A 58 458 17 HOH HOH . G 5 HOH A 59 459 21 HOH HOH . G 5 HOH A 60 460 5 HOH HOH . G 5 HOH A 61 461 22 HOH HOH . G 5 HOH A 62 462 29 HOH HOH . G 5 HOH A 63 463 13 HOH HOH . G 5 HOH A 64 464 23 HOH HOH . G 5 HOH A 65 465 133 HOH HOH . G 5 HOH A 66 466 47 HOH HOH . G 5 HOH A 67 467 30 HOH HOH . G 5 HOH A 68 468 99 HOH HOH . G 5 HOH A 69 469 83 HOH HOH . G 5 HOH A 70 470 59 HOH HOH . G 5 HOH A 71 471 105 HOH HOH . G 5 HOH A 72 472 8 HOH HOH . G 5 HOH A 73 473 14 HOH HOH . G 5 HOH A 74 474 112 HOH HOH . G 5 HOH A 75 475 58 HOH HOH . G 5 HOH A 76 476 103 HOH HOH . G 5 HOH A 77 477 106 HOH HOH . G 5 HOH A 78 478 27 HOH HOH . G 5 HOH A 79 479 104 HOH HOH . G 5 HOH A 80 480 46 HOH HOH . G 5 HOH A 81 481 64 HOH HOH . G 5 HOH A 82 482 50 HOH HOH . G 5 HOH A 83 483 123 HOH HOH . G 5 HOH A 84 484 49 HOH HOH . G 5 HOH A 85 485 28 HOH HOH . G 5 HOH A 86 486 88 HOH HOH . G 5 HOH A 87 487 93 HOH HOH . G 5 HOH A 88 488 44 HOH HOH . G 5 HOH A 89 489 38 HOH HOH . G 5 HOH A 90 490 63 HOH HOH . G 5 HOH A 91 491 19 HOH HOH . G 5 HOH A 92 492 37 HOH HOH . G 5 HOH A 93 493 79 HOH HOH . G 5 HOH A 94 494 116 HOH HOH . G 5 HOH A 95 495 90 HOH HOH . G 5 HOH A 96 496 95 HOH HOH . G 5 HOH A 97 497 36 HOH HOH . G 5 HOH A 98 498 48 HOH HOH . G 5 HOH A 99 499 26 HOH HOH . G 5 HOH A 100 500 11 HOH HOH . G 5 HOH A 101 501 1 HOH HOH . G 5 HOH A 102 502 87 HOH HOH . G 5 HOH A 103 503 55 HOH HOH . G 5 HOH A 104 504 108 HOH HOH . G 5 HOH A 105 505 61 HOH HOH . G 5 HOH A 106 506 39 HOH HOH . G 5 HOH A 107 507 51 HOH HOH . G 5 HOH A 108 508 107 HOH HOH . G 5 HOH A 109 509 43 HOH HOH . G 5 HOH A 110 510 77 HOH HOH . G 5 HOH A 111 511 89 HOH HOH . G 5 HOH A 112 512 56 HOH HOH . G 5 HOH A 113 513 65 HOH HOH . G 5 HOH A 114 514 109 HOH HOH . G 5 HOH A 115 515 33 HOH HOH . G 5 HOH A 116 516 119 HOH HOH . G 5 HOH A 117 517 111 HOH HOH . G 5 HOH A 118 518 96 HOH HOH . G 5 HOH A 119 519 69 HOH HOH . G 5 HOH A 120 520 42 HOH HOH . G 5 HOH A 121 521 75 HOH HOH . G 5 HOH A 122 522 102 HOH HOH . G 5 HOH A 123 523 122 HOH HOH . G 5 HOH A 124 524 131 HOH HOH . G 5 HOH A 125 525 128 HOH HOH . G 5 HOH A 126 526 118 HOH HOH . G 5 HOH A 127 527 110 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 C C9 4LU . . . B 2 -8.476 29.759 14.699 1 25.24 ? C9 4LU 301 A 1 HETATM 2 C C8 4LU . . . B 2 -8.732 31.078 15.133 1 29.98 ? C8 4LU 301 A 1 HETATM 3 C C7 4LU . . . B 2 -7.91 32.144 14.758 1 26.21 ? C7 4LU 301 A 1 HETATM 4 C C10 4LU . . . B 2 -6.498 28.128 12.09 1 24.6 ? C10 4LU 301 A 1 HETATM 5 C C6 4LU . . . B 2 -6.774 31.896 13.922 1 28.04 ? C6 4LU 301 A 1 HETATM 6 N N3 4LU . . . B 2 -5.31 27.886 9.618 1 25.2 ? N3 4LU 301 A 1 HETATM 7 C C2 4LU . . . B 2 -5.995 26.817 10.175 1 24.03 ? C2 4LU 301 A 1 HETATM 8 C C13 4LU . . . B 2 -6.313 33.771 12.337 1 23.96 ? C13 4LU 301 A 1 HETATM 9 C C5 4LU . . . B 2 -5.802 32.934 13.48 1 24.98 ? C5 4LU 301 A 1 HETATM 10 C C1 4LU . . . B 2 -4.486 31.225 12.189 1 26.34 ? C1 4LU 301 A 1 HETATM 11 O O2 4LU . . . B 2 -6.042 25.764 9.453 1 22.1 ? O2 4LU 301 A 1 HETATM 12 N N1 4LU . . . B 2 -6.616 26.951 11.363 1 20.19 ? N1 4LU 301 A 1 HETATM 13 C C4 4LU . . . B 2 -5.272 29.192 10.211 1 26.11 ? C4 4LU 301 A 1 HETATM 14 O O4 4LU . . . B 2 -4.683 30.061 9.531 1 19.2 ? O4 4LU 301 A 1 HETATM 15 C C4A 4LU . . . B 2 -5.648 29.17 11.605 1 23.94 ? C4A 4LU 301 A 1 HETATM 16 N N5 4LU . . . B 2 -5.581 30.319 12.497 1 26.44 ? N5 4LU 301 A 1 HETATM 17 C C3 4LU . . . B 2 -4.457 32.287 13.291 1 27.18 ? C3 4LU 301 A 1 HETATM 18 C C12 4LU . . . B 2 -5.436 33.89 14.755 1 26.5 ? C12 4LU 301 A 1 HETATM 19 C C5A 4LU . . . B 2 -6.567 30.572 13.432 1 27.48 ? C5A 4LU 301 A 1 HETATM 20 C C7M 4LU . . . B 2 -8.37 33.546 15.064 1 29.41 ? C7M 4LU 301 A 1 HETATM 21 C C8M 4LU . . . B 2 -9.989 31.333 15.715 1 29.21 ? C8M 4LU 301 A 1 HETATM 22 C C9A 4LU . . . B 2 -7.318 29.503 13.868 1 26.89 ? C9A 4LU 301 A 1 HETATM 23 N N10 4LU . . . B 2 -7.111 28.264 13.296 1 26.28 ? N10 4LU 301 A 1 HETATM 24 C C1' 4LU . . . B 2 -7.684 27.008 14.006 1 28.95 ? C1' 4LU 301 A 1 HETATM 25 C C2' 4LU . . . B 2 -9.06 26.595 13.52 1 28.38 ? C2' 4LU 301 A 1 HETATM 26 O O2' 4LU . . . B 2 -9.978 27.727 13.597 1 26.55 ? O2' 4LU 301 A 1 HETATM 27 C C3' 4LU . . . B 2 -9.521 25.429 14.341 1 29.9 ? C3' 4LU 301 A 1 HETATM 28 O O3' 4LU . . . B 2 -8.668 24.337 14.456 1 28.01 ? O3' 4LU 301 A 1 HETATM 29 C C4' 4LU . . . B 2 -10.995 25.29 14.463 1 26.75 ? C4' 4LU 301 A 1 HETATM 30 O O4' 4LU . . . B 2 -11.396 24.139 15.33 1 27.06 ? O4' 4LU 301 A 1 HETATM 31 C C5' 4LU . . . B 2 -11.466 25.17 13.024 1 27.03 ? C5' 4LU 301 A 1 HETATM 32 O O5' 4LU . . . B 2 -12.883 24.962 13.119 1 25.87 ? O5' 4LU 301 A 1 HETATM 33 P P 4LU . . . B 2 -13.782 25.186 11.746 1 25.61 ? P 4LU 301 A 1 HETATM 34 O O2P 4LU . . . B 2 -13.856 26.62 11.34 1 21.77 ? O2P 4LU 301 A 1 HETATM 35 O O3P 4LU . . . B 2 -13.064 24.174 10.673 1 27.93 ? O3P 4LU 301 A 1 HETATM 36 O O1P 4LU . . . B 2 -15.218 24.641 12.111 1 26.52 ? O1P 4LU 301 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 36 #