data_FDA # _chem_comp.id FDA _chem_comp.name "DIHYDROFLAVINE-ADENINE DINUCLEOTIDE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C27 H35 N9 O15 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2024-09-27 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 787.566 _chem_comp.one_letter_code ? _chem_comp.three_letter_code FDA _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1FNC _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm Y # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal FDA PA AP P 0 1 N N S N N N 24.445 -0.811 -0.526 -1.668 -0.576 -3.237 PA FDA 1 FDA O1A AO1 O 0 1 N N N N N N 24.815 0.609 -0.510 -0.812 -1.776 -3.378 O1A FDA 2 FDA O2A AO2 O 0 1 N N N N N N 25.166 -1.918 -1.277 -3.190 -1.029 -2.973 O2A FDA 3 FDA O5B AO5* O 0 1 N N N N N N 22.867 -1.044 -0.870 -1.595 0.296 -4.588 O5B FDA 4 FDA C5B AC5* C 0 1 N N N N N N 22.032 0.019 -0.367 -2.066 -0.540 -5.647 C5B FDA 5 FDA C4B AC4* C 0 1 N N R N N N 20.855 0.062 -1.279 -2.022 0.232 -6.966 C4B FDA 6 FDA O4B AO4* O 0 1 N N N N N N 20.092 -1.107 -0.914 -0.667 0.606 -7.269 O4B FDA 7 FDA C3B AC3* C 0 1 N N S N N N 19.827 1.173 -1.097 -2.521 -0.664 -8.116 C3B FDA 8 FDA O3B AO3* O 0 1 N N N N N N 20.237 2.438 -1.536 -3.670 -0.092 -8.743 O3B FDA 9 FDA C2B AC2* C 0 1 N N R N N N 18.617 0.561 -1.842 -1.327 -0.707 -9.105 C2B FDA 10 FDA O2B AO2* O 0 1 N N N N N N 18.780 0.712 -3.262 -1.782 -0.618 -10.456 O2B FDA 11 FDA C1B AC1* C 0 1 N N R N N N 18.796 -0.903 -1.586 -0.528 0.559 -8.705 C1B FDA 12 FDA N9A AN9 N 0 1 Y N N N N N 17.741 -1.487 -0.745 0.880 0.425 -9.083 N9A FDA 13 FDA C8A AC8 C 0 1 Y N N N N N 17.671 -1.612 0.663 1.859 -0.171 -8.346 C8A FDA 14 FDA N7A AN7 N 0 1 Y N N N N N 16.601 -2.322 1.028 2.993 -0.111 -8.982 N7A FDA 15 FDA C5A AC5 C 0 1 Y N N N N N 15.986 -2.639 -0.164 2.814 0.525 -10.165 C5A FDA 16 FDA C6A AC6 C 0 1 Y N N N N N 14.774 -3.357 -0.463 3.653 0.872 -11.237 C6A FDA 17 FDA N6A AN6 N 0 1 N N N N N N 14.019 -3.877 0.473 4.999 0.551 -11.216 N6A FDA 18 FDA N1A AN1 N 0 1 Y N N N N N 14.464 -3.459 -1.796 3.123 1.515 -12.273 N1A FDA 19 FDA C2A AC2 C 0 1 Y N N N N N 15.240 -2.921 -2.788 1.840 1.825 -12.302 C2A FDA 20 FDA N3A AN3 N 0 1 Y N N N N N 16.347 -2.242 -2.593 1.017 1.521 -11.320 N3A FDA 21 FDA C4A AC4 C 0 1 Y N N N N N 16.665 -2.143 -1.286 1.455 0.872 -10.246 C4A FDA 22 FDA N1 N1 N 0 1 N N N N N N 23.963 1.281 9.306 2.543 -1.358 7.432 N1 FDA 23 FDA C2 C2 C 0 1 N N N N N N 24.235 0.345 10.227 3.864 -1.405 7.691 C2 FDA 24 FDA O2 O2 O 0 1 N N N N N N 24.041 -0.843 9.994 4.563 -2.196 7.088 O2 FDA 25 FDA N3 N3 N 0 1 N N N N N N 24.656 0.759 11.508 4.422 -0.591 8.605 N3 FDA 26 FDA C4 C4 C 0 1 N N N N N N 24.879 2.037 11.850 3.669 0.294 9.288 C4 FDA 27 FDA O4 O4 O 0 1 N N N N N N 25.361 2.319 12.882 4.181 1.030 10.115 O4 FDA 28 FDA C4X C4A C 0 1 N N N N N N 24.671 3.028 10.810 2.290 0.362 9.037 C4X FDA 29 FDA N5 N5 N 0 1 N N N N N N 24.815 4.296 11.098 1.472 1.281 9.740 N5 FDA 30 FDA C5X C5A C 0 1 Y N N N N N 24.493 5.165 10.092 0.079 1.127 9.675 C5X FDA 31 FDA C6 C6 C 0 1 Y N N N N N 24.716 6.507 10.302 -0.750 1.813 10.544 C6 FDA 32 FDA C7 C7 C 0 1 Y N N N N N 24.328 7.405 9.333 -2.123 1.644 10.462 C7 FDA 33 FDA C7M C7M C 0 1 N N N N N N 24.495 8.861 9.529 -3.029 2.388 11.408 C7M FDA 34 FDA C8 C8 C 0 1 Y N N N N N 23.949 6.964 8.047 -2.663 0.790 9.520 C8 FDA 35 FDA C8M C8M C 0 1 N N N N N N 23.641 7.970 6.986 -4.157 0.611 9.439 C8M FDA 36 FDA C9 C9 C 0 1 Y N N N N N 23.828 5.632 7.768 -1.837 0.105 8.644 C9 FDA 37 FDA C9A C9A C 0 1 Y N N N N N 24.118 4.732 8.785 -0.466 0.269 8.718 C9A FDA 38 FDA N10 N10 N 0 1 N N N N N N 23.908 3.406 8.597 0.386 -0.419 7.841 N10 FDA 39 FDA C10 C10 C 0 1 N N N N N N 24.187 2.518 9.579 1.737 -0.471 8.104 C10 FDA 40 FDA "C1'" C1* C 0 1 N N N N N N 23.537 2.866 7.275 -0.158 -1.080 6.653 "C1'" FDA 41 FDA "C2'" C2* C 0 1 N N S N N N 24.851 2.506 6.446 -0.038 -0.144 5.448 "C2'" FDA 42 FDA "O2'" O2* O 0 1 N N N N N N 25.548 3.726 6.154 -0.852 1.011 5.660 "O2'" FDA 43 FDA "C3'" C3* C 0 1 N N S N N N 24.587 1.796 5.101 -0.506 -0.873 4.187 "C3'" FDA 44 FDA "O3'" O3* O 0 1 N N N N N N 23.679 2.559 4.270 0.307 -2.028 3.975 "O3'" FDA 45 FDA "C4'" C4* C 0 1 N N R N N N 24.100 0.358 5.267 -0.386 0.062 2.983 "C4'" FDA 46 FDA "O4'" O4* O 0 1 N N N N N N 25.040 -0.396 6.073 -1.200 1.218 3.195 "O4'" FDA 47 FDA "C5'" C5* C 0 1 N N N N N N 23.883 -0.338 3.893 -0.854 -0.666 1.722 "C5'" FDA 48 FDA "O5'" O5* O 0 1 N N N N N N 25.089 -0.148 3.066 -0.742 0.208 0.597 "O5'" FDA 49 FDA P P P 0 1 N N R N N N 25.643 -1.363 2.139 -1.248 -0.619 -0.687 P FDA 50 FDA O1P O1P O 0 1 N N N N N N 26.850 -0.739 1.450 -0.400 -1.818 -0.867 O1P FDA 51 FDA O2P O2P O 0 1 N N N N N N 25.687 -2.714 2.851 -2.777 -1.072 -0.465 O2P FDA 52 FDA O3P O3P O 0 1 N N N N N N 24.395 -1.302 1.055 -1.149 0.310 -1.997 O3P FDA 53 FDA HOA2 2HOA H 0 0 N N N N N N 24.926 -2.837 -1.287 -3.712 -0.220 -2.887 HOA2 FDA 54 FDA H51A AH51 H 0 0 N N N N N N 21.762 -0.092 0.709 -1.431 -1.423 -5.721 H51A FDA 55 FDA H52A AH52 H 0 0 N N N N N N 22.559 0.996 -0.268 -3.091 -0.847 -5.439 H52A FDA 56 FDA H4B AH4* H 0 1 N N N N N N 21.284 0.176 -2.301 -2.645 1.123 -6.894 H4B FDA 57 FDA H3B AH3* H 0 1 N N N N N N 19.611 1.430 -0.033 -2.747 -1.665 -7.747 H3B FDA 58 FDA HO3A AHO3 H 0 0 N N N N N N 19.596 3.130 -1.422 -3.896 -0.665 -9.488 HO3A FDA 59 FDA H2B AH2* H 0 1 N N N N N N 17.650 1.015 -1.522 -0.729 -1.607 -8.956 H2B FDA 60 FDA HO2A AHO2 H 0 0 N N N N N N 18.037 0.336 -3.719 -2.268 -1.433 -10.642 HO2A FDA 61 FDA H1B AH1* H 0 1 N N N N N N 18.747 -1.414 -2.575 -0.964 1.447 -9.162 H1B FDA 62 FDA H8A AH8 H 0 1 N N N N N N 18.378 -1.198 1.401 1.716 -0.625 -7.377 H8A FDA 63 FDA H61A AH61 H 0 0 N N N N N N 13.160 -4.385 0.261 5.567 0.796 -11.963 H61A FDA 64 FDA H62A AH62 H 0 0 N N N N N N 13.783 -3.132 1.129 5.373 0.081 -10.455 H62A FDA 65 FDA H2A AH2 H 0 1 N N N N N N 14.945 -3.046 -3.843 1.451 2.349 -13.162 H2A FDA 66 FDA HN1 HN1 H 0 1 N N N N N N 22.989 1.181 9.017 2.160 -1.953 6.769 HN1 FDA 67 FDA HN3 HN3 H 0 1 N N N N N N 24.812 0.076 12.249 5.376 -0.643 8.775 HN3 FDA 68 FDA HN5 HN5 H 0 1 N N N N N N 25.764 4.475 11.424 1.867 2.002 10.254 HN5 FDA 69 FDA H6 H6 H 0 1 N N N N N N 25.197 6.856 11.230 -0.329 2.478 11.284 H6 FDA 70 FDA HM71 1HM7 H 0 0 N N N N N N 24.180 9.588 8.744 -3.304 3.347 10.969 HM71 FDA 71 FDA HM72 2HM7 H 0 0 N N N N N N 23.989 9.141 10.482 -3.929 1.800 11.588 HM72 FDA 72 FDA HM73 3HM7 H 0 0 N N N N N N 25.565 9.056 9.771 -2.510 2.557 12.352 HM73 FDA 73 FDA HM81 1HM8 H 0 0 N N N N N N 23.341 7.621 5.970 -4.460 -0.213 10.084 HM81 FDA 74 FDA HM82 2HM8 H 0 0 N N N N N N 22.856 8.663 7.369 -4.651 1.527 9.764 HM82 FDA 75 FDA HM83 3HM8 H 0 0 N N N N N N 24.512 8.657 6.883 -4.441 0.391 8.410 HM83 FDA 76 FDA H9 H9 H 0 1 N N N N N N 23.510 5.298 6.766 -2.264 -0.558 7.905 H9 FDA 77 FDA "H1'1" 1H1* H 0 0 N N N N N N 22.843 1.996 7.357 0.399 -1.996 6.458 "H1'1" FDA 78 FDA "H1'2" 2H1* H 0 0 N N N N N N 22.865 3.557 6.714 -1.207 -1.323 6.821 "H1'2" FDA 79 FDA "H2'" H2* H 0 1 N N N N N N 25.434 1.800 7.082 1.000 0.160 5.327 "H2'" FDA 80 FDA "HO2'" *HO2 H 0 0 N N N N N N 26.330 3.511 5.660 -1.758 0.696 5.780 "HO2'" FDA 81 FDA "H3'" H3* H 0 1 N N N N N N 25.573 1.738 4.584 -1.546 -1.178 4.308 "H3'" FDA 82 FDA "HO3'" *HO3 H 0 0 N N N N N N 23.516 2.122 3.442 1.216 -1.715 3.873 "HO3'" FDA 83 FDA "H4'" H4* H 0 1 N N N N N N 23.113 0.389 5.786 0.652 0.367 2.862 "H4'" FDA 84 FDA "HO4'" *HO4 H 0 0 N N N N N N 24.737 -1.290 6.176 -2.109 0.904 3.297 "HO4'" FDA 85 FDA "H5'1" 1H5* H 0 0 N N N N N N 23.605 -1.412 3.999 -0.233 -1.547 1.560 "H5'1" FDA 86 FDA "H5'2" 2H5* H 0 0 N N N N N N 22.956 0.011 3.380 -1.894 -0.971 1.843 "H5'2" FDA 87 FDA HOP2 2HOP H 0 0 N N N N N N 26.010 -3.424 2.309 -3.295 -0.263 -0.352 HOP2 FDA 88 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal FDA PA O1A DOUB N N 1 FDA PA O2A SING N N 2 FDA PA O5B SING N N 3 FDA PA O3P SING N N 4 FDA O2A HOA2 SING N N 5 FDA O5B C5B SING N N 6 FDA C5B C4B SING N N 7 FDA C5B H51A SING N N 8 FDA C5B H52A SING N N 9 FDA C4B O4B SING N N 10 FDA C4B C3B SING N N 11 FDA C4B H4B SING N N 12 FDA O4B C1B SING N N 13 FDA C3B O3B SING N N 14 FDA C3B C2B SING N N 15 FDA C3B H3B SING N N 16 FDA O3B HO3A SING N N 17 FDA C2B O2B SING N N 18 FDA C2B C1B SING N N 19 FDA C2B H2B SING N N 20 FDA O2B HO2A SING N N 21 FDA C1B N9A SING N N 22 FDA C1B H1B SING N N 23 FDA N9A C8A SING Y N 24 FDA N9A C4A SING Y N 25 FDA C8A N7A DOUB Y N 26 FDA C8A H8A SING N N 27 FDA N7A C5A SING Y N 28 FDA C5A C6A SING Y N 29 FDA C5A C4A DOUB Y N 30 FDA C6A N6A SING N N 31 FDA C6A N1A DOUB Y N 32 FDA N6A H61A SING N N 33 FDA N6A H62A SING N N 34 FDA N1A C2A SING Y N 35 FDA C2A N3A DOUB Y N 36 FDA C2A H2A SING N N 37 FDA N3A C4A SING Y N 38 FDA N1 C2 SING N N 39 FDA N1 C10 SING N N 40 FDA N1 HN1 SING N N 41 FDA C2 O2 DOUB N N 42 FDA C2 N3 SING N N 43 FDA N3 C4 SING N N 44 FDA N3 HN3 SING N N 45 FDA C4 O4 DOUB N N 46 FDA C4 C4X SING N N 47 FDA C4X N5 SING N N 48 FDA C4X C10 DOUB N N 49 FDA N5 C5X SING N N 50 FDA N5 HN5 SING N N 51 FDA C5X C6 DOUB Y N 52 FDA C5X C9A SING Y N 53 FDA C6 C7 SING Y N 54 FDA C6 H6 SING N N 55 FDA C7 C7M SING N N 56 FDA C7 C8 DOUB Y N 57 FDA C7M HM71 SING N N 58 FDA C7M HM72 SING N N 59 FDA C7M HM73 SING N N 60 FDA C8 C8M SING N N 61 FDA C8 C9 SING Y N 62 FDA C8M HM81 SING N N 63 FDA C8M HM82 SING N N 64 FDA C8M HM83 SING N N 65 FDA C9 C9A DOUB Y N 66 FDA C9 H9 SING N N 67 FDA C9A N10 SING N N 68 FDA N10 C10 SING N N 69 FDA N10 "C1'" SING N N 70 FDA "C1'" "C2'" SING N N 71 FDA "C1'" "H1'1" SING N N 72 FDA "C1'" "H1'2" SING N N 73 FDA "C2'" "O2'" SING N N 74 FDA "C2'" "C3'" SING N N 75 FDA "C2'" "H2'" SING N N 76 FDA "O2'" "HO2'" SING N N 77 FDA "C3'" "O3'" SING N N 78 FDA "C3'" "C4'" SING N N 79 FDA "C3'" "H3'" SING N N 80 FDA "O3'" "HO3'" SING N N 81 FDA "C4'" "O4'" SING N N 82 FDA "C4'" "C5'" SING N N 83 FDA "C4'" "H4'" SING N N 84 FDA "O4'" "HO4'" SING N N 85 FDA "C5'" "O5'" SING N N 86 FDA "C5'" "H5'1" SING N N 87 FDA "C5'" "H5'2" SING N N 88 FDA "O5'" P SING N N 89 FDA P O1P DOUB N N 90 FDA P O2P SING N N 91 FDA P O3P SING N N 92 FDA O2P HOP2 SING N N 93 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor FDA SMILES ACDLabs 10.04 "O=C3C=2Nc1cc(c(cc1N(C=2NC(=O)N3)CC(O)C(O)C(O)COP(=O)(O)OP(=O)(O)OCC6OC(n5cnc4c(ncnc45)N)C(O)C6O)C)C" FDA SMILES_CANONICAL CACTVS 3.341 "Cc1cc2NC3=C(NC(=O)NC3=O)N(C[C@H](O)[C@H](O)[C@H](O)CO[P@](O)(=O)O[P@](O)(=O)OC[C@H]4O[C@H]([C@H](O)[C@@H]4O)n5cnc6c(N)ncnc56)c2cc1C" FDA SMILES CACTVS 3.341 "Cc1cc2NC3=C(NC(=O)NC3=O)N(C[CH](O)[CH](O)[CH](O)CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH]([CH](O)[CH]4O)n5cnc6c(N)ncnc56)c2cc1C" FDA SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "Cc1cc2c(cc1C)N(C3=C(N2)C(=O)NC(=O)N3)C[C@@H]([C@@H]([C@@H](CO[P@@](=O)(O)O[P@@](=O)(O)OC[C@@H]4[C@H]([C@H]([C@@H](O4)n5cnc6c5ncnc6N)O)O)O)O)O" FDA SMILES "OpenEye OEToolkits" 1.5.0 "Cc1cc2c(cc1C)N(C3=C(N2)C(=O)NC(=O)N3)CC(C(C(COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)n5cnc6c5ncnc6N)O)O)O)O)O" FDA InChI InChI 1.03 "InChI=1S/C27H35N9O15P2/c1-10-3-12-13(4-11(10)2)35(24-18(32-12)25(42)34-27(43)33-24)5-14(37)19(39)15(38)6-48-52(44,45)51-53(46,47)49-7-16-20(40)21(41)26(50-16)36-9-31-17-22(28)29-8-30-23(17)36/h3-4,8-9,14-16,19-21,26,32,37-41H,5-7H2,1-2H3,(H,44,45)(H,46,47)(H2,28,29,30)(H2,33,34,42,43)/t14-,15+,16+,19-,20+,21+,26+/m0/s1" FDA InChIKey InChI 1.03 YPZRHBJKEMOYQH-UYBVJOGSSA-N # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier FDA "SYSTEMATIC NAME" ACDLabs 10.04 "[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl (2R,3S,4S)-5-(7,8-dimethyl-2,4-dioxo-1,3,4,5-tetrahydrobenzo[g]pteridin-10(2H)-yl)-2,3,4-trihydroxypentyl dihydrogen diphosphate (non-preferred name)" FDA "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl [[(2R,3S,4S)-5-(7,8-dimethyl-2,4-dioxo-1,5-dihydrobenzo[g]pteridin-10-yl)-2,3,4-trihydroxy-pentoxy]-hydroxy-phosphoryl] hydrogen phosphate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site FDA "Create component" 1999-07-08 RCSB FDA "Modify descriptor" 2011-06-04 RCSB FDA "Modify PCM" 2024-09-27 PDBE # loop_ _pdbx_chem_comp_pcm.pcm_id _pdbx_chem_comp_pcm.comp_id _pdbx_chem_comp_pcm.modified_residue_id _pdbx_chem_comp_pcm.type _pdbx_chem_comp_pcm.category _pdbx_chem_comp_pcm.position _pdbx_chem_comp_pcm.polypeptide_position _pdbx_chem_comp_pcm.comp_id_linking_atom _pdbx_chem_comp_pcm.modified_residue_id_linking_atom _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession 1 FDA CYS None "Covalent chemical modification" "Amino-acid side chain" "Any position" C6 SG ? ? 2 FDA HIS None "Covalent chemical modification" "Amino-acid side chain" "Any position" C8M ND1 ? ? 3 FDA HIS None "Covalent chemical modification" "Amino-acid side chain" "Any position" C8M NE2 ? ? 4 FDA LYX None "Covalent chemical modification" "Amino-acid side chain" "Any position" N5 C22 ? ? #