data_2NF
# 
_chem_comp.id                                    2NF 
_chem_comp.name                                  
;[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy-hydroxyphosphoryl]
[(2R,3S,4R,5R)-5-(3-carbamoylpyridin-1-ium-1yl)- 3-fluoro-,4- hydroxyoxolan-2-yl]methyl phosphate
;
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C21 H26 F N7 O13 P2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         
;nicotinamide 2'-deoxy-2'-fluororibofuranosyl adenine dinucleotide
;
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2009-03-27 
_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                        665.416 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     2NF 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   N 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        3GHH 
_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 
2NF O7N  O7N  O 0  1 N N N N N N 23.875 -4.878  1.079  -8.096 -5.068 0.975  O7N  2NF 1  
2NF C7N  C7N  C 0  1 N N N N N N 23.396 -3.598  1.444  -8.420 -4.189 1.750  C7N  2NF 2  
2NF N7N  N7N  N 0  1 N N N N N N 24.262 -2.600  1.664  -9.213 -4.477 2.801  N7N  2NF 3  
2NF C3N  C3N  C 0  1 Y N N N N N 21.907 -3.405  1.640  -7.937 -2.807 1.545  C3N  2NF 4  
2NF C4N  C4N  C 0  1 Y N N N N N 21.117 -4.554  1.544  -8.298 -1.788 2.434  C4N  2NF 5  
2NF C5N  C5N  C 0  1 Y N N N N N 19.744 -4.451  1.736  -7.820 -0.511 2.196  C5N  2NF 6  
2NF C6N  C6N  C 0  1 Y N N N N N 19.181 -3.199  2.026  -7.009 -0.285 1.099  C6N  2NF 7  
2NF C2N  C2N  C 0  1 Y N N N N N 21.309 -2.157  1.934  -7.110 -2.497 0.464  C2N  2NF 8  
2NF N1N  N1N  N 1  1 Y N N N N N 19.942 -2.056  2.127  -6.685 -1.265 0.277  N1N  2NF 9  
2NF C1D  C1D  C 0  1 N N R N N N 19.213 -0.777  2.451  -5.824 -0.976 -0.872 C1D  2NF 10 
2NF C2D  C2D  C 0  1 N N R N N N 19.820 0.568   2.004  -6.655 -0.340 -2.003 C2D  2NF 11 
2NF F2D  F2D  F 0  1 N N N N N N 19.472 1.556   2.960  -6.600 -1.131 -3.155 F2D  2NF 12 
2NF C3D  C3D  C 0  1 N N R N N N 19.055 0.965   0.759  -5.974 1.028  -2.251 C3D  2NF 13 
2NF O3D  O3D  O 0  1 N N N N N N 18.371 2.178   0.936  -5.897 1.314  -3.649 O3D  2NF 14 
2NF O4D  O4D  O 0  1 N N N N N N 17.928 -0.772  1.844  -4.811 -0.028 -0.496 O4D  2NF 15 
2NF C4D  C4D  C 0  1 N N R N N N 17.996 -0.126  0.576  -4.561 0.800  -1.655 C4D  2NF 16 
2NF C5D  C5D  C 0  1 N N N N N N 18.382 -1.041  -0.606 -3.930 2.131  -1.241 C5D  2NF 17 
2NF O5D  O5D  O 0  1 N N N N N N 17.699 -2.290  -0.568 -2.588 1.906  -0.805 O5D  2NF 18 
2NF PN   PN   P 0  1 N N N N N N 16.616 -2.659  -1.724 -1.621 3.089  -0.296 PN   2NF 19 
2NF O1N  O1N  O 0  1 N N N N N N 15.706 -1.490  -1.822 -1.532 4.185  -1.381 O1N  2NF 20 
2NF O2N  O2N  O -1 1 N N N N N N 16.122 -4.055  -1.501 -2.193 3.697  1.004  O2N  2NF 21 
2NF O3   O3   O 0  1 N N N N N N 17.506 -2.518  -3.021 -0.152 2.496  -0.009 O3   2NF 22 
2NF PA   PA   P 0  1 N N R N N N 17.963 -3.683  -4.039 1.298  3.159  0.211  PA   2NF 23 
2NF O1A  O1A  O 0  1 N N N N N N 19.014 -2.975  -4.827 1.179  4.309  1.136  O1A  2NF 24 
2NF O2A  O2A  O 0  1 N N N N N N 16.696 -4.261  -4.510 1.877  3.667  -1.203 O2A  2NF 25 
2NF O5B  O5B  O 0  1 N N N N N N 18.741 -4.765  -3.172 2.299  2.066  0.839  O5B  2NF 26 
2NF C5B  C5B  C 0  1 N N N N N N 20.015 -4.457  -2.617 3.633  2.375  1.248  C5B  2NF 27 
2NF C4B  C4B  C 0  1 N N R N N N 20.521 -5.799  -2.139 4.303  1.114  1.797  C4B  2NF 28 
2NF O4B  O4B  O 0  1 N N N N N N 19.646 -6.310  -1.133 4.478  0.154  0.742  O4B  2NF 29 
2NF C1B  C1B  C 0  1 N N R N N N 19.150 -7.571  -1.550 5.707  -0.553 1.014  C1B  2NF 30 
2NF C2B  C2B  C 0  1 N N R N N N 19.201 -7.607  -3.076 6.660  0.561  1.519  C2B  2NF 31 
2NF O2B  O2B  O 0  1 N N N N N N 19.210 -8.917  -3.602 7.687  0.015  2.350  O2B  2NF 32 
2NF C3B  C3B  C 0  1 N N S N N N 20.438 -6.738  -3.341 5.704  1.459  2.339  C3B  2NF 33 
2NF O3B  O3B  O 0  1 N N N N N N 21.666 -7.407  -3.451 5.793  1.146  3.730  O3B  2NF 34 
2NF N9A  N9A  N 0  1 Y N N N N N 17.805 -7.859  -1.036 6.232  -1.166 -0.208 N9A  2NF 35 
2NF C8A  C8A  C 0  1 Y N N N N N 16.586 -7.350  -1.390 5.973  -0.767 -1.486 C8A  2NF 36 
2NF N7A  N7A  N 0  1 Y N N N N N 15.670 -7.956  -0.607 6.602  -1.535 -2.327 N7A  2NF 37 
2NF C5A  C5A  C 0  1 Y N N N N N 16.308 -8.830  0.229  7.302  -2.473 -1.645 C5A  2NF 38 
2NF C6A  C6A  C 0  1 Y N N N N N 15.891 -9.697  1.220  8.142  -3.539 -2.010 C6A  2NF 39 
2NF N6A  N6A  N 0  1 N N N N N N 14.598 -9.755  1.526  8.406  -3.809 -3.342 N6A  2NF 40 
2NF C4A  C4A  C 0  1 Y N N N N N 17.650 -8.779  -0.032 7.077  -2.244 -0.278 C4A  2NF 41 
2NF N3A  N3A  N 0  1 Y N N N N N 18.570 -9.545  0.646  7.664  -3.036 0.615  N3A  2NF 42 
2NF C2A  C2A  C 0  1 Y N N N N N 18.177 -10.407 1.626  8.447  -4.019 0.227  C2A  2NF 43 
2NF N1A  N1A  N 0  1 Y N N N N N 16.807 -10.472 1.905  8.679  -4.281 -1.047 N1A  2NF 44 
2NF HN7N HN7N H 0  0 N N N N N N 25.178 -2.963  1.496  -9.527 -5.384 2.938  HN7N 2NF 45 
2NF HN7A HN7A H 0  0 N N N N N N 24.035 -1.667  1.944  -9.472 -3.776 3.420  HN7A 2NF 46 
2NF H4N  H4N  H 0  1 N N N N N N 21.568 -5.510  1.323  -8.933 -1.992 3.283  H4N  2NF 47 
2NF H5N  H5N  H 0  1 N N N N N N 19.116 -5.327  1.663  -8.078 0.301  2.861  H5N  2NF 48 
2NF H6N  H6N  H 0  1 N N N N N N 18.114 -3.129  2.175  -6.634 0.711  0.911  H6N  2NF 49 
2NF H2N  H2N  H 0  1 N N N N N N 21.926 -1.274  2.009  -6.820 -3.274 -0.228 H2N  2NF 50 
2NF H1D  H1D  H 0  1 N N N N N N 19.245 -0.809  3.550  -5.358 -1.895 -1.226 H1D  2NF 51 
2NF H2D  H2D  H 0  1 N N N N N N 20.909 0.486   1.869  -7.688 -0.201 -1.685 H2D  2NF 52 
2NF H3D  H3D  H 0  1 N N N N N N 19.745 1.078   -0.090 -6.496 1.825  -1.721 H3D  2NF 53 
2NF HO3D HO3D H 0  0 N N N N N N 18.216 2.323   1.862  -6.758 1.376  -4.085 HO3D 2NF 54 
2NF H4D  H4D  H 0  1 N N N N N N 16.998 0.247   0.304  -3.924 0.277  -2.368 H4D  2NF 55 
2NF H5D  H5D  H 0  1 N N N N N N 18.122 -0.529  -1.544 -3.926 2.811  -2.093 H5D  2NF 56 
2NF H5DA H5DA H 0  0 N N N N N N 19.461 -1.244  -0.538 -4.508 2.570  -0.428 H5DA 2NF 57 
2NF HO2A HO2A H 0  0 N N N N N N 16.111 -4.386  -3.772 1.981  2.964  -1.860 HO2A 2NF 58 
2NF H5B  H5B  H 0  1 N N N N N N 20.687 -4.015  -3.368 4.198  2.744  0.392  H5B  2NF 59 
2NF H5BA H5BA H 0  0 N N N N N N 19.961 -3.709  -1.812 3.607  3.140  2.024  H5BA 2NF 60 
2NF H4B  H4B  H 0  1 N N N N N N 21.540 -5.713  -1.734 3.691  0.685  2.591  H4B  2NF 61 
2NF H1B  H1B  H 0  1 N N N N N N 19.783 -8.366  -1.129 5.553  -1.308 1.785  H1B  2NF 62 
2NF H2B  H2B  H 0  1 N N N N N N 18.311 -7.221  -3.595 7.091  1.112  0.683  H2B  2NF 63 
2NF HO2B HO2B H 0  0 N N N N N N 19.212 -8.878  -4.551 8.309  0.673  2.690  HO2B 2NF 64 
2NF H3B  H3B  H 0  1 N N N N N N 20.300 -6.261  -4.322 5.930  2.512  2.169  H3B  2NF 65 
2NF HO3B HO3B H 0  0 N N N N N N 21.864 -7.558  -4.368 6.654  1.343  4.124  HO3B 2NF 66 
2NF H8A  H8A  H 0  1 N N N N N N 16.394 -6.607  -2.150 5.340  0.064  -1.760 H8A  2NF 67 
2NF HN6A HN6A H 0  0 N N N N N N 14.491 -9.770  2.520  8.009  -3.260 -4.036 HN6A 2NF 68 
2NF HN6B HN6B H 0  0 N N N N N N 14.131 -8.954  1.152  8.987  -4.547 -3.581 HN6B 2NF 69 
2NF H2A  H2A  H 0  1 N N N N N N 18.891 -11.013 2.163  8.908  -4.644 0.978  H2A  2NF 70 
# 
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 
2NF O7N C7N  DOUB N N 1  
2NF C7N C3N  SING N N 2  
2NF C7N N7N  SING N N 3  
2NF N7N HN7N SING N N 4  
2NF N7N HN7A SING N N 5  
2NF C3N C2N  SING Y N 6  
2NF C4N C3N  DOUB Y N 7  
2NF C4N C5N  SING Y N 8  
2NF C4N H4N  SING N N 9  
2NF C5N C6N  DOUB Y N 10 
2NF C5N H5N  SING N N 11 
2NF C6N N1N  SING Y N 12 
2NF C6N H6N  SING N N 13 
2NF C2N N1N  DOUB Y N 14 
2NF C2N H2N  SING N N 15 
2NF N1N C1D  SING N N 16 
2NF C1D H1D  SING N N 17 
2NF C2D C1D  SING N N 18 
2NF C2D F2D  SING N N 19 
2NF C2D H2D  SING N N 20 
2NF C3D C2D  SING N N 21 
2NF C3D O3D  SING N N 22 
2NF C3D H3D  SING N N 23 
2NF O3D HO3D SING N N 24 
2NF O4D C1D  SING N N 25 
2NF C4D C3D  SING N N 26 
2NF C4D O4D  SING N N 27 
2NF C4D H4D  SING N N 28 
2NF C5D C4D  SING N N 29 
2NF C5D O5D  SING N N 30 
2NF C5D H5D  SING N N 31 
2NF C5D H5DA SING N N 32 
2NF PN  O5D  SING N N 33 
2NF PN  O2N  SING N N 34 
2NF O1N PN   DOUB N N 35 
2NF O3  PN   SING N N 36 
2NF PA  O3   SING N N 37 
2NF PA  O5B  SING N N 38 
2NF O1A PA   DOUB N N 39 
2NF O2A PA   SING N N 40 
2NF O2A HO2A SING N N 41 
2NF O5B C5B  SING N N 42 
2NF C5B C4B  SING N N 43 
2NF C5B H5B  SING N N 44 
2NF C5B H5BA SING N N 45 
2NF C4B O4B  SING N N 46 
2NF C4B H4B  SING N N 47 
2NF C1B O4B  SING N N 48 
2NF C1B N9A  SING N N 49 
2NF C1B H1B  SING N N 50 
2NF C2B C1B  SING N N 51 
2NF C2B H2B  SING N N 52 
2NF O2B C2B  SING N N 53 
2NF O2B HO2B SING N N 54 
2NF C3B C4B  SING N N 55 
2NF C3B C2B  SING N N 56 
2NF C3B H3B  SING N N 57 
2NF O3B C3B  SING N N 58 
2NF O3B HO3B SING N N 59 
2NF N9A C4A  SING Y N 60 
2NF C8A N9A  SING Y N 61 
2NF C8A N7A  DOUB Y N 62 
2NF C8A H8A  SING N N 63 
2NF N7A C5A  SING Y N 64 
2NF C5A C6A  SING Y N 65 
2NF C6A N6A  SING N N 66 
2NF C6A N1A  DOUB Y N 67 
2NF N6A HN6A SING N N 68 
2NF N6A HN6B SING N N 69 
2NF C4A C5A  DOUB Y N 70 
2NF C4A N3A  SING Y N 71 
2NF N3A C2A  DOUB Y N 72 
2NF C2A N1A  SING Y N 73 
2NF C2A H2A  SING N N 74 
# 
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 
2NF InChI            InChI                1.03  "InChI=1S/C21H26FN7O13P2/c22-12-14(30)10(40-20(12)28-3-1-2-9(4-28)18(24)33)5-38-43(34,35)42-44(36,37)39-6-11-15(31)16(32)21(41-11)29-8-27-13-17(23)25-7-26-19(13)29/h1-4,7-8,10-12,14-16,20-21,30-32H,5-6H2,(H5-,23,24,25,26,33,34,35,36,37)/t10-,11-,12-,14-,15-,16-,20-,21-/m1/s1" 
2NF InChIKey         InChI                1.03  JSGNSBZQCQQLEF-OZCXFSBSSA-N                                                                                                                                                                                                                                                          
2NF SMILES_CANONICAL CACTVS               3.385 "NC(=O)c1ccc[n+](c1)[C@@H]2O[C@H](CO[P]([O-])(=O)O[P](O)(=O)OC[C@H]3O[C@H]([C@H](O)[C@@H]3O)n4cnc5c(N)ncnc45)[C@@H](O)[C@H]2F"                                                                                                                                                       
2NF SMILES           CACTVS               3.385 "NC(=O)c1ccc[n+](c1)[CH]2O[CH](CO[P]([O-])(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O)[CH]3O)n4cnc5c(N)ncnc45)[CH](O)[CH]2F"                                                                                                                                                                  
2NF SMILES_CANONICAL "OpenEye OEToolkits" 1.7.5 "c1cc(c[n+](c1)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)([O-])O[P@](=O)(O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4ncnc5N)O)O)O)F)C(=O)N"                                                                                                                                                   
2NF SMILES           "OpenEye OEToolkits" 1.7.5 "c1cc(c[n+](c1)C2C(C(C(O2)COP(=O)([O-])OP(=O)(O)OCC3C(C(C(O3)n4cnc5c4ncnc5N)O)O)O)F)C(=O)N"                                                                                                                                                                                          
# 
_pdbx_chem_comp_identifier.comp_id           2NF 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   1.5.0 
_pdbx_chem_comp_identifier.identifier        "[(2R,3R,4R,5R)-5-(3-aminocarbonylpyridin-1-ium-1-yl)-4-fluoro-3-hydroxy-oxolan-2-yl]methyl [[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] 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 
2NF "Create component"   2009-03-27 RCSB 
2NF "Modify descriptor"  2011-06-04 RCSB 
2NF "Modify descriptor"  2012-01-05 RCSB 
2NF "Modify coordinates" 2012-01-05 RCSB 
2NF "Modify synonyms"    2020-06-05 PDBE 
2NF "Modify PCM"         2024-09-27 PDBE 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      2NF 
_pdbx_chem_comp_synonyms.name         
;nicotinamide 2'-deoxy-2'-fluororibofuranosyl adenine dinucleotide
;
_pdbx_chem_comp_synonyms.provenance   ? 
_pdbx_chem_comp_synonyms.type         ? 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            2NF 
_pdbx_chem_comp_pcm.modified_residue_id                GLU 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               C1D 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OE2 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
