data_LNC
#

_chem_comp.id                                   LNC
_chem_comp.name                                 "(3S)-5-(3-CARBOXY-3-HYDROXYPROPYL) NICOTINAMIDE-ADENINE-DINUCLEOTIDE"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C25 H33 N7 O17 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        S-LAC-NAD+
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2003-04-25
_chem_comp.pdbx_modified_date                   2020-06-17
_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                       765.514
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    LNC
_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  Y
_chem_comp.pdbx_model_coordinates_db_code       5LDH
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 RCSB
#   #
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.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
LNC  N7N     NN7     N   0  1  N  N  N  14.357  19.694   7.850   -6.179   3.925  -2.349  N7N     LNC   1  
LNC  C7N     NC7     C   0  1  N  N  N  14.453  20.316   6.657   -5.605   2.732  -2.099  C7N     LNC   2  
LNC  O7N     NO7     O   0  1  N  N  N  15.038  19.722   5.762   -4.685   2.343  -2.792  O7N     LNC   3  
LNC  C3N     NC3     C   0  1  Y  N  N  13.878  21.679   6.402   -6.093   1.896  -0.982  C3N     LNC   4  
LNC  C4N     NC4     C   0  1  Y  N  N  14.179  22.325   5.266   -7.152   2.332  -0.176  C4N     LNC   5  
LNC  C5N     NC5     C   0  1  Y  N  N  13.633  23.570   5.069   -7.572   1.512   0.856  C5N     LNC   6  
LNC  CGS     CGS     C   0  1  N  N  N  13.950  24.319   3.808   -8.708   1.936   1.751  CGS     LNC   7  
LNC  CBS     CBS     C   0  1  N  N  N  15.412  24.073   3.391  -10.031   1.440   1.165  CBS     LNC   8  
LNC  CAS     CAS     C   0  1  N  N  S  15.835  22.658   3.751  -11.184   1.871   2.074  CAS     LNC   9  
LNC  OAS     OAS     O   0  1  N  N  N  17.025  22.689   4.526  -11.063   1.217   3.339  OAS     LNC  10  
LNC  CS      "C S"   C   0  1  N  N  N  16.090  21.857   2.508  -12.496   1.491   1.436  CS      LNC  11  
LNC  O1S     O1S     O   0  1  N  N  N  17.279  21.482   2.221  -12.872   2.065   0.283  O1S     LNC  12  
LNC  O2S     O2S     O   0  1  N  N  N  15.117  21.548   1.736  -13.208   0.669   1.963  O2S     LNC  13  
LNC  C6N     NC6     C   0  1  Y  N  N  12.810  24.129   6.007   -6.938   0.299   1.057  C6N     LNC  14  
LNC  N1N     NN1     N   1  1  Y  N  N  12.539  23.439   7.133   -5.942  -0.086   0.282  N1N     LNC  15  
LNC  C2N     NC2     C   0  1  Y  N  N  13.033  22.357   7.268   -5.511   0.656  -0.717  C2N     LNC  16  
LNC  C1D     NC1*    C   0  1  N  N  R  11.666  23.974   8.181   -5.302  -1.380   0.536  C1D     LNC  17  
LNC  O4D     NO4*    O   0  1  N  N  N  10.337  23.526   7.963   -3.881  -1.293   0.295  O4D     LNC  18  
LNC  C4D     NC4*    C   0  1  N  N  R   9.431  24.385   8.712   -3.447  -2.654   0.084  C4D     LNC  19  
LNC  C5D     NC5*    C   0  1  N  N  N   8.105  24.458   7.980   -2.114  -2.678  -0.665  C5D     LNC  20  
LNC  O5D     NO5*    O   0  1  N  N  N   8.132  25.531   7.019   -1.091  -2.121   0.163  O5D     LNC  21  
LNC  PN      NP      P   0  1  N  N  S   6.752  26.052   6.399    0.277  -2.178  -0.684  PN      LNC  22  
LNC  O1N     NO1     O   0  1  N  N  N   6.870  27.488   6.063    0.683  -3.713  -0.945  O1N     LNC  23  
LNC  O2N     NO2     O   0  1  N  N  N   6.335  25.159   5.295    0.083  -1.491  -1.980  O2N     LNC  24  
LNC  O3      O3      O   0  1  N  N  N   5.759  25.870   7.640    1.449  -1.445   0.141  O3      LNC  25  
LNC  PA      AP      P   0  1  N  N  N   5.316  27.383   7.914    2.597  -1.062  -0.921  PA      LNC  26  
LNC  O1A     AO1     O  -1  1  N  N  N   6.472  28.156   8.423    3.378  -2.335  -1.316  O1A     LNC  27  
LNC  O2A     AO2     O   0  1  N  N  N   4.646  27.931   6.714    1.948  -0.446  -2.181  O2A     LNC  28  
LNC  O5B     AO5*    O   0  1  N  N  N   4.244  27.188   9.086    3.606   0.004  -0.261  O5B     LNC  29  
LNC  C5B     AC5*    C   0  1  N  N  N   2.850  27.068   8.744    4.525   0.391  -1.284  C5B     LNC  30  
LNC  C4B     AC4*    C   0  1  N  N  R   2.029  26.823   9.994    5.518   1.410  -0.719  C4B     LNC  31  
LNC  O4B     AO4*    O   0  1  N  N  N   2.869  26.986  11.173    6.352   0.782   0.269  O4B     LNC  32  
LNC  C1B     AC1*    C   0  1  N  N  R   2.071  27.396  12.273    7.654   1.398   0.174  C1B     LNC  33  
LNC  C2B     AC2*    C   0  1  N  N  R   0.661  27.665  11.755    7.866   1.560  -1.353  C2B     LNC  34  
LNC  O2B     AO2*    O   0  1  N  N  N  -0.104  26.503  12.022    8.784   2.620  -1.631  O2B     LNC  35  
LNC  C3B     AC3*    C   0  1  N  N  S   0.899  27.820  10.254    6.440   1.922  -1.843  C3B     LNC  36  
LNC  O3B     AO3*    O   0  1  N  N  N  -0.247  27.531   9.472    6.308   3.336  -2.001  O3B     LNC  37  
LNC  N9A     AN9     N   0  1  Y  N  N   2.714  28.590  12.888    8.681   0.526   0.751  N9A     LNC  38  
LNC  C8A     AC8     C   0  1  Y  N  N   3.178  29.716  12.272    8.601  -0.827   0.896  C8A     LNC  39  
LNC  N7A     AN7     N   0  1  Y  N  N   3.690  30.586  13.086    9.690  -1.280   1.445  N7A     LNC  40  
LNC  C5A     AC5     C   0  1  Y  N  N   3.558  29.995  14.335   10.536  -0.250   1.685  C5A     LNC  41  
LNC  C6A     AC6     C   0  1  Y  N  N   3.910  30.407  15.642   11.820  -0.136   2.244  C6A     LNC  42  
LNC  N6A     AN6     N   0  1  N  N  N   4.502  31.580  15.909   12.498  -1.254   2.697  N6A     LNC  43  
LNC  N1A     AN1     N   0  1  Y  N  N   3.631  29.568  16.656   12.370   1.072   2.328  N1A     LNC  44  
LNC  C2A     AC2     C   0  1  Y  N  N   3.043  28.404  16.384   11.731   2.145   1.898  C2A     LNC  45  
LNC  N3A     AN3     N   0  1  Y  N  N   2.670  27.913  15.222   10.528   2.085   1.367  N3A     LNC  46  
LNC  C4A     AC4     C   0  1  Y  N  N   2.961  28.773  14.224    9.901   0.921   1.238  C4A     LNC  47  
LNC  C3D     NC3*    C   0  1  N  N  S  10.228  25.670   8.938   -4.561  -3.295  -0.774  C3D     LNC  48  
LNC  O3D     NO3*    O   0  1  N  N  N  10.566  25.764  10.311   -4.775  -4.652  -0.383  O3D     LNC  49  
LNC  C2D     NC2*    C   0  1  N  N  R  11.518  25.491   8.139   -5.811  -2.438  -0.468  C2D     LNC  50  
LNC  O2D     NO2*    O   0  1  N  N  N  12.642  26.169   8.674   -6.838  -3.241   0.118  O2D     LNC  51  
LNC  HN71    1HN7    H   0  0  N  N  N  14.747  18.767   8.023   -5.858   4.474  -3.082  HN71    LNC  52  
LNC  HN72    2HN7    H   0  0  N  N  N  13.869  20.189   8.596   -6.915   4.234  -1.798  HN72    LNC  53  
LNC  H4      H4      H   0  1  N  N  N  14.846  21.852   4.525   -7.629   3.284  -0.356  H4      LNC  54  
LNC  HGS1    1HGS    H   0  0  N  N  N  13.236  24.071   2.987   -8.567   1.508   2.744  HGS1    LNC  55  
LNC  HGS2    2HGS    H   0  0  N  N  N  13.722  25.406   3.902   -8.727   3.023   1.824  HGS2    LNC  56  
LNC  HBS1    1HBS    H   0  0  N  N  N  15.578  24.294   2.310  -10.172   1.869   0.173  HBS1    LNC  57  
LNC  HBS2    2HBS    H   0  0  N  N  N  16.101  24.835   3.824  -10.012   0.353   1.092  HBS2    LNC  58  
LNC  HAS     HAS     H   0  1  N  N  N  15.012  22.185   4.337  -11.150   2.951   2.218  HAS     LNC  59  
LNC  H1      H1      H   0  1  N  N  N  17.289  21.804   4.751  -11.098   0.266   3.167  H1      LNC  60  
LNC  H2S     H2S     H   0  1  N  N  N  15.278  21.040   0.949        ?       ?       ?  H2S     LNC  61  
LNC  H6      H6      H   0  1  N  N  N  12.368  25.128   5.856   -7.264  -0.343   1.862  H6      LNC  62  
LNC  H2      H2      H   0  1  N  N  N  12.691  21.964   8.240   -4.693   0.306  -1.329  H2      LNC  63  
LNC  "H1'"   H1*     H   0  1  N  N  N  12.132  23.639   9.136   -5.495  -1.703   1.559  "H1'"   LNC  64  
LNC  "H4'"   H4*     H   0  1  N  N  N   9.111  24.030   9.719   -3.355  -3.175   1.037  "H4'"   LNC  65  
LNC  "H5'1"  1H5*    H   0  0  N  N  N   7.831  23.483   7.511   -1.857  -3.707  -0.918  "H5'1"  LNC  66  
LNC  "H5'2"  2H5*    H   0  0  N  N  N   7.243  24.547   8.682   -2.200  -2.091  -1.580  "H5'2"  LNC  67  
LNC  HO1     HO1     H   0  1  N  N  N   6.050  27.797   5.694    0.800  -4.123  -0.077  HO1     LNC  68  
LNC  H11     1H1     H   0  1  N  N  N   2.483  27.950   8.169    5.067  -0.486  -1.637  H11     LNC  69  
LNC  H12     2H1     H   0  1  N  N  N   2.675  26.285   7.969    3.978   0.839  -2.114  H12     LNC  70  
LNC  H5      H5      H   0  1  N  N  N   1.611  25.803   9.823    4.978   2.245  -0.273  H5      LNC  71  
LNC  H7      H7      H   0  1  N  N  N   1.991  26.616  13.066    7.657   2.370   0.667  H7      LNC  72  
LNC  "H2'"   H2*     H   0  1  N  N  N   0.133  28.540  12.199    8.207   0.626  -1.800  "H2'"   LNC  73  
LNC  H8      H8      H   0  1  N  N  N  -0.981  26.670  11.699    8.872   2.668  -2.593  H8      LNC  74  
LNC  "H3'"   H3*     H   0  1  N  N  N   1.146  28.869   9.968    6.217   1.412  -2.780  "H3'"   LNC  75  
LNC  H9      H9      H   0  1  N  N  N  -0.949  28.150   9.633    6.951   3.603  -2.672  H9      LNC  76  
LNC  H10     H10     H   0  1  N  N  N   3.141  29.910  11.186    7.757  -1.433   0.600  H10     LNC  77  
LNC  HN61    1HN6    H   0  0  N  N  N   4.755  31.877  16.851   12.086  -2.130   2.631  HN61    LNC  78  
LNC  HN62    2HN6    H   0  0  N  N  N   3.918  32.313  15.506   13.384  -1.163   3.081  HN62    LNC  79  
LNC  H111    H11     H   0  0  N  N  N   2.834  27.750  17.247   12.214   3.107   1.985  H111    LNC  80  
LNC  H122    H12     H   0  0  N  N  N   9.656  26.577   8.634   -4.307  -3.238  -1.833  H122    LNC  81  
LNC  H13     H13     H   0  1  N  N  N  11.061  26.562  10.451   -5.478  -4.999  -0.951  H13     LNC  82  
LNC  H14     H14     H   0  1  N  N  N  11.467  25.931   7.115   -6.176  -1.957  -1.376  H14     LNC  83  
LNC  H15     H15     H   0  1  N  N  N  12.549  27.114   8.647   -7.069  -3.918  -0.532  H15     LNC  84  
#   #
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
LNC  N7N  C7N     SING  N  N   1  
LNC  N7N  HN71    SING  N  N   2  
LNC  N7N  HN72    SING  N  N   3  
LNC  C7N  O7N     DOUB  N  N   4  
LNC  C7N  C3N     SING  N  N   5  
LNC  C3N  C4N     DOUB  Y  N   6  
LNC  C3N  C2N     SING  Y  N   7  
LNC  C4N  C5N     SING  Y  N   8  
LNC  C4N  H4      SING  N  N   9  
LNC  C5N  CGS     SING  N  N  10  
LNC  C5N  C6N     DOUB  Y  N  11  
LNC  CGS  CBS     SING  N  N  12  
LNC  CGS  HGS1    SING  N  N  13  
LNC  CGS  HGS2    SING  N  N  14  
LNC  CBS  CAS     SING  N  N  15  
LNC  CBS  HBS1    SING  N  N  16  
LNC  CBS  HBS2    SING  N  N  17  
LNC  CAS  OAS     SING  N  N  18  
LNC  CAS  CS      SING  N  N  19  
LNC  CAS  HAS     SING  N  N  20  
LNC  OAS  H1      SING  N  N  21  
LNC  CS   O1S     DOUB  N  N  22  
LNC  CS   O2S     SING  N  N  23  
LNC  O2S  H2S     SING  N  N  24  
LNC  C6N  N1N     SING  Y  N  25  
LNC  C6N  H6      SING  N  N  26  
LNC  N1N  C2N     DOUB  Y  N  27  
LNC  N1N  C1D     SING  N  N  28  
LNC  C2N  H2      SING  N  N  29  
LNC  C1D  O4D     SING  N  N  30  
LNC  C1D  C2D     SING  N  N  31  
LNC  C1D  "H1'"   SING  N  N  32  
LNC  O4D  C4D     SING  N  N  33  
LNC  C4D  C5D     SING  N  N  34  
LNC  C4D  C3D     SING  N  N  35  
LNC  C4D  "H4'"   SING  N  N  36  
LNC  C5D  O5D     SING  N  N  37  
LNC  C5D  "H5'1"  SING  N  N  38  
LNC  C5D  "H5'2"  SING  N  N  39  
LNC  O5D  PN      SING  N  N  40  
LNC  PN   O1N     SING  N  N  41  
LNC  PN   O2N     DOUB  N  N  42  
LNC  PN   O3      SING  N  N  43  
LNC  O1N  HO1     SING  N  N  44  
LNC  O3   PA      SING  N  N  45  
LNC  PA   O1A     SING  N  N  46  
LNC  PA   O2A     DOUB  N  N  47  
LNC  PA   O5B     SING  N  N  48  
LNC  O5B  C5B     SING  N  N  49  
LNC  C5B  C4B     SING  N  N  50  
LNC  C5B  H11     SING  N  N  51  
LNC  C5B  H12     SING  N  N  52  
LNC  C4B  O4B     SING  N  N  53  
LNC  C4B  C3B     SING  N  N  54  
LNC  C4B  H5      SING  N  N  55  
LNC  O4B  C1B     SING  N  N  56  
LNC  C1B  C2B     SING  N  N  57  
LNC  C1B  N9A     SING  N  N  58  
LNC  C1B  H7      SING  N  N  59  
LNC  C2B  O2B     SING  N  N  60  
LNC  C2B  C3B     SING  N  N  61  
LNC  C2B  "H2'"   SING  N  N  62  
LNC  O2B  H8      SING  N  N  63  
LNC  C3B  O3B     SING  N  N  64  
LNC  C3B  "H3'"   SING  N  N  65  
LNC  O3B  H9      SING  N  N  66  
LNC  N9A  C8A     SING  Y  N  67  
LNC  N9A  C4A     SING  Y  N  68  
LNC  C8A  N7A     DOUB  Y  N  69  
LNC  C8A  H10     SING  N  N  70  
LNC  N7A  C5A     SING  Y  N  71  
LNC  C5A  C6A     SING  Y  N  72  
LNC  C5A  C4A     DOUB  Y  N  73  
LNC  C6A  N6A     SING  N  N  74  
LNC  C6A  N1A     DOUB  Y  N  75  
LNC  N6A  HN61    SING  N  N  76  
LNC  N6A  HN62    SING  N  N  77  
LNC  N1A  C2A     SING  Y  N  78  
LNC  C2A  N3A     DOUB  Y  N  79  
LNC  C2A  H111    SING  N  N  80  
LNC  N3A  C4A     SING  Y  N  81  
LNC  C3D  O3D     SING  N  N  82  
LNC  C3D  C2D     SING  N  N  83  
LNC  C3D  H122    SING  N  N  84  
LNC  O3D  H13     SING  N  N  85  
LNC  C2D  O2D     SING  N  N  86  
LNC  C2D  H14     SING  N  N  87  
LNC  O2D  H15     SING  N  N  88  
#   #
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
LNC  SMILES_CANONICAL  CACTVS                3.341  "NC(=O)c1cc(CC[C@H](O)C(O)=O)c[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]2O"  
LNC  SMILES            CACTVS                3.341  "NC(=O)c1cc(CC[CH](O)C(O)=O)c[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]2O"  
LNC  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "c1c(c[n+](cc1C(=O)N)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P@](=O)(O)O[P@](=O)([O-])OC[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4ncnc5N)O)O)O)O)CC[C@@H](C(=O)O)O"  
LNC  SMILES            "OpenEye OEToolkits"  1.5.0  "c1c(c[n+](cc1C(=O)N)C2C(C(C(O2)COP(=O)(O)OP(=O)([O-])OCC3C(C(C(O3)n4cnc5c4ncnc5N)O)O)O)O)CCC(C(=O)O)O"  
LNC  InChI             InChI                 1.03   "InChI=1S/C25H33N7O17P2/c26-20-15-22(29-8-28-20)32(9-30-15)24-19(37)17(35)14(48-24)7-46-51(43,44)49-50(41,42)45-6-13-16(34)18(36)23(47-13)31-4-10(1-2-12(33)25(39)40)3-11(5-31)21(27)38/h3-5,8-9,12-14,16-19,23-24,33-37H,1-2,6-7H2,(H6-,26,27,28,29,38,39,40,41,42,43,44)/t12-,13+,14+,16+,17+,18+,19+,23+,24+/m0/s1"  
LNC  InChIKey          InChI                 1.03   PLMTVPOYALSQOL-AMUFZZJCSA-N  
#
_pdbx_chem_comp_identifier.comp_id          LNC
_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,3S,4R,5R)-5-[3-aminocarbonyl-5-[(3S)-3,4-dihydroxy-4-oxo-butyl]pyridin-1-ium-1-yl]-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] [(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl 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
LNC  "Create component"   2003-04-25  RCSB  
LNC  "Modify descriptor"  2011-06-04  RCSB  
LNC  "Modify synonyms"    2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     LNC
_pdbx_chem_comp_synonyms.name        S-LAC-NAD+
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
