data_UD2
#

_chem_comp.id                                   UD2
_chem_comp.name                                 URIDINE-DIPHOSPHATE-N-ACETYLGALACTOSAMINE
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C17 H27 N3 O17 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        
;(2R,3R,4R,5R,6R)-3-(acetylamino)-4,5-dihydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-2-yl
[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen
diphosphate
;

_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2001-02-21
_chem_comp.pdbx_modified_date                   2020-06-17
_chem_comp.pdbx_ambiguous_flag                  ?
_chem_comp.pdbx_release_status                  REL
_chem_comp.pdbx_replaced_by                     ?
_chem_comp.pdbx_replaces                        ?
_chem_comp.formula_weight                       607.354
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    UD2
_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       1OMZ
_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
UD2  "C1'"   "C1'"   C  0  1  N  N  R  -21.840  -55.954  -41.771   4.577   0.429  -0.412  "C1'"   UD2   1  
UD2  "C2'"   "C2'"   C  0  1  N  N  R  -22.855  -56.648  -40.824   5.330   0.789   0.871  "C2'"   UD2   2  
UD2  "C3'"   "C3'"   C  0  1  N  N  R  -23.963  -57.332  -41.660   4.496   1.788   1.679  "C3'"   UD2   3  
UD2  "C4'"   "C4'"   C  0  1  N  N  R  -24.679  -56.265  -42.531   4.208   3.016   0.811  "C4'"   UD2   4  
UD2  "C5'"   "C5'"   C  0  1  N  N  R  -23.627  -55.592  -43.464   3.498   2.570  -0.470  "C5'"   UD2   5  
UD2  "C6'"   "C6'"   C  0  1  N  N  N  -24.204  -54.489  -44.350   3.260   3.784  -1.370  "C6'"   UD2   6  
UD2  "C7'"   "C7'"   C  0  1  N  N  N  -21.395  -57.257  -38.911   6.614  -1.209   1.416  "C7'"   UD2   7  
UD2  "C8'"   "C8'"   C  0  1  N  N  N  -21.163  -58.317  -37.842   6.840  -2.454   2.233  "C8'"   UD2   8  
UD2  "N2'"   "N2'"   N  0  1  N  N  N  -22.149  -57.621  -39.965   5.549  -0.422   1.666  "N2'"   UD2   9  
UD2  "O1'"   "O1'"   O  0  1  N  N  N  -20.989  -56.938  -42.384   3.342  -0.207  -0.078  "O1'"   UD2  10  
UD2  "O3'"   "O3'"   O  0  1  N  N  N  -24.901  -57.956  -40.798   5.224   2.186   2.843  "O3'"   UD2  11  
UD2  "O4'"   "O4'"   O  0  1  N  N  N  -25.295  -55.274  -41.693   5.437   3.663   0.476  "O4'"   UD2  12  
UD2  "O5'"   "O5'"   O  0  1  N  N  N  -22.515  -55.015  -42.683   4.313   1.619  -1.158  "O5'"   UD2  13  
UD2  "O6'"   "O6'"   O  0  1  N  N  N  -23.546  -54.430  -45.610   2.497   3.389  -2.512  "O6'"   UD2  14  
UD2  "O7'"   "O7'"   O  0  1  N  N  N  -20.885  -56.129  -38.777   7.391  -0.914   0.532  "O7'"   UD2  15  
UD2  N1      N1      N  0  1  N  N  N  -24.294  -60.063  -48.284  -5.477   1.043   0.383  N1      UD2  16  
UD2  C2      C2      C  0  1  N  N  N  -25.218  -60.200  -49.343  -6.056   1.956   1.183  C2      UD2  17  
UD2  N3      N3      N  0  1  N  N  N  -24.855  -59.492  -50.500  -6.384   3.176   0.718  N3      UD2  18  
UD2  C4      C4      C  0  1  N  N  N  -23.699  -58.694  -50.685  -6.133   3.503  -0.566  C4      UD2  19  
UD2  C5      C5      C  0  1  N  N  N  -22.811  -58.610  -49.547  -5.523   2.552  -1.419  C5      UD2  20  
UD2  C6      C6      C  0  1  N  N  N  -23.120  -59.272  -48.422  -5.201   1.338  -0.925  C6      UD2  21  
UD2  O2      O2      O  0  1  N  N  N  -26.246  -60.869  -49.273  -6.288   1.675   2.343  O2      UD2  22  
UD2  O4      O4      O  0  1  N  N  N  -23.498  -58.130  -51.747  -6.429   4.607  -0.988  O4      UD2  23  
UD2  C1B     C1*     C  0  1  N  N  R  -24.595  -60.780  -47.012  -5.132  -0.276   0.918  C1B     UD2  24  
UD2  C2B     C2*     C  0  1  N  N  R  -23.456  -61.744  -46.672  -5.967  -1.382   0.224  C2B     UD2  25  
UD2  "O2'"   O2*     O  0  1  N  N  N  -23.578  -63.019  -47.276  -7.226  -1.556   0.877  "O2'"   UD2  26  
UD2  C3B     C3*     C  0  1  N  N  S  -23.463  -61.792  -45.152  -5.071  -2.631   0.410  C3B     UD2  27  
UD2  C4B     C4*     C  0  1  N  N  R  -24.008  -60.427  -44.741  -3.667  -2.052   0.669  C4B     UD2  28  
UD2  O4B     O4*     O  0  1  N  N  N  -24.699  -59.859  -45.902  -3.771  -0.622   0.581  O4B     UD2  29  
UD2  O3B     O3*     O  0  1  N  N  N  -24.318  -62.812  -44.594  -5.511  -3.398   1.532  O3B     UD2  30  
UD2  C5B     C5*     C  0  1  N  N  N  -22.901  -59.489  -44.304  -2.688  -2.569  -0.388  C5B     UD2  31  
UD2  O5B     O5*     O  0  1  N  N  N  -21.944  -59.321  -45.336  -1.368  -2.122  -0.073  O5B     UD2  32  
UD2  PA      PA      P  0  1  N  N  S  -20.393  -59.122  -45.021  -0.083  -2.481  -0.975  PA      UD2  33  
UD2  O1A     O1A     O  0  1  N  N  N  -19.947  -59.871  -43.811   0.177  -4.069  -0.930  O1A     UD2  34  
UD2  O2A     O2A     O  0  1  N  N  N  -19.612  -59.327  -46.241  -0.328  -2.060  -2.372  O2A     UD2  35  
UD2  O3A     O3A     O  0  1  N  N  N  -20.222  -57.590  -44.680   1.208  -1.709  -0.400  O3A     UD2  36  
UD2  PB      PB      P  0  1  N  N  R  -19.783  -56.724  -43.442   2.638  -1.306  -1.021  PB      UD2  37  
UD2  O1B     O1B     O  0  1  N  N  N  -18.642  -57.385  -42.803   3.572  -2.615  -1.110  O1B     UD2  38  
UD2  O2B     O2B     O  0  1  N  N  N  -19.775  -55.288  -43.869   2.447  -0.744  -2.376  O2B     UD2  39  
UD2  "H1'"   "H1'"   H  0  1  N  N  N  -21.158  -55.307  -41.200   5.184  -0.249  -1.012  "H1'"   UD2  40  
UD2  "H2'"   "H2'"   H  0  1  N  N  N  -23.331  -55.900  -40.173   6.290   1.236   0.616  "H2'"   UD2  41  
UD2  "H3'"   "H3'"   H  0  1  N  N  N  -23.513  -58.096  -42.310   3.557   1.322   1.978  "H3'"   UD2  42  
UD2  "H4'"   "H4'"   H  0  1  N  N  N  -25.462  -56.746  -43.135   3.570   3.709   1.360  "H4'"   UD2  43  
UD2  "H5'"   "H5'"   H  0  1  N  N  N  -23.271  -56.403  -44.116   2.542   2.113  -0.216  "H5'"   UD2  44  
UD2  "H6'1"  "1H6'"  H  0  0  N  N  N  -24.078  -53.523  -43.839   2.714   4.547  -0.815  "H6'1"  UD2  45  
UD2  "H6'2"  "2H6'"  H  0  0  N  N  N  -25.267  -54.709  -44.526   4.219   4.188  -1.696  "H6'2"  UD2  46  
UD2  "H8'1"  "1H8'"  H  0  0  N  N  N  -21.107  -59.309  -38.314   7.743  -2.957   1.888  "H8'1"  UD2  47  
UD2  "H8'2"  "2H8'"  H  0  0  N  N  N  -20.219  -58.107  -37.317   6.952  -2.184   3.283  "H8'2"  UD2  48  
UD2  "H8'3"  "3H8'"  H  0  0  N  N  N  -21.995  -58.300  -37.123   5.986  -3.123   2.120  "H8'3"  UD2  49  
UD2  "HN2'"  "HN2'"  H  0  0  N  N  N  -22.235  -58.595  -40.176   4.927  -0.658   2.372  "HN2'"  UD2  50  
UD2  "HO3'"  "HO3'"  H  0  0  N  N  N  -24.505  -58.095  -39.946   4.754   2.819   3.403  "HO3'"  UD2  51  
UD2  "HO4'"  "HO4'"  H  0  0  N  N  N  -25.431  -55.633  -40.824   5.330   4.451  -0.075  "HO4'"  UD2  52  
UD2  "HO6'"  "HO6'"  H  0  0  N  N  N  -24.193  -54.417  -46.305   2.308   4.110  -3.128  "HO6'"  UD2  53  
UD2  HN3     HN3     H  0  1  N  N  N  -25.480  -59.558  -51.278  -6.802   3.822   1.308  HN3     UD2  54  
UD2  H5      H5      H  0  1  N  N  N  -21.908  -58.020  -49.602  -5.315   2.796  -2.450  H5      UD2  55  
UD2  H6      H6      H  0  1  N  N  N  -22.446  -59.201  -47.581  -4.734   0.600  -1.561  H6      UD2  56  
UD2  H1B     H1*     H  0  1  N  N  N  -25.547  -61.311  -47.161  -5.281  -0.303   1.997  H1B     UD2  57  
UD2  H2B     H2*     H  0  1  N  N  N  -22.494  -61.396  -47.076  -6.107  -1.158  -0.834  H2B     UD2  58  
UD2  "HO2'"  HO2*    H  0  0  N  N  N  -23.605  -62.921  -48.221  -7.785  -2.237   0.479  "HO2'"  UD2  59  
UD2  H3B     H3*     H  0  1  N  N  N  -22.453  -62.026  -44.785  -5.073  -3.240  -0.494  H3B     UD2  60  
UD2  H4B     H4*     H  0  1  N  N  N  -24.689  -60.551  -43.886  -3.325  -2.341   1.663  H4B     UD2  61  
UD2  HO3A    HO3*    H  0  0  N  N  N  -24.506  -63.466  -45.257  -6.412  -3.738   1.448  HO3A    UD2  62  
UD2  "H5'1"  1H5*    H  0  0  N  N  N  -22.403  -59.911  -43.419  -2.710  -3.659  -0.401  "H5'1"  UD2  63  
UD2  "H5'2"  2H5*    H  0  0  N  N  N  -23.342  -58.509  -44.069  -2.977  -2.188  -1.367  "H5'2"  UD2  64  
UD2  HOA2    HO1A    H  0  0  N  N  N  -19.852  -60.792  -44.025   0.346  -4.415  -0.043  HOA2    UD2  65  
UD2  HOB2    HO1B    H  0  0  N  N  N  -17.957  -57.528  -43.446   3.740  -3.036  -0.256  HOB2    UD2  66  
#   #
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
UD2  O4     C4      DOUB  N  N   1  
UD2  C4     N3      SING  N  N   2  
UD2  C4     C5      SING  N  N   3  
UD2  N3     C2      SING  N  N   4  
UD2  C5     C6      DOUB  N  N   5  
UD2  C2     O2      DOUB  N  N   6  
UD2  C2     N1      SING  N  N   7  
UD2  C6     N1      SING  N  N   8  
UD2  N1     C1B     SING  N  N   9  
UD2  "O2'"  C2B     SING  N  N  10  
UD2  C1B    C2B     SING  N  N  11  
UD2  C1B    O4B     SING  N  N  12  
UD2  C2B    C3B     SING  N  N  13  
UD2  O2A    PA      DOUB  N  N  14  
UD2  O4B    C4B     SING  N  N  15  
UD2  "O6'"  "C6'"   SING  N  N  16  
UD2  O5B    PA      SING  N  N  17  
UD2  O5B    C5B     SING  N  N  18  
UD2  C3B    C4B     SING  N  N  19  
UD2  C3B    O3B     SING  N  N  20  
UD2  PA     O3A     SING  N  N  21  
UD2  PA     O1A     SING  N  N  22  
UD2  C4B    C5B     SING  N  N  23  
UD2  O3A    PB      SING  N  N  24  
UD2  "C6'"  "C5'"   SING  N  N  25  
UD2  O2B    PB      DOUB  N  N  26  
UD2  "C5'"  "O5'"   SING  N  N  27  
UD2  "C5'"  "C4'"   SING  N  N  28  
UD2  PB     O1B     SING  N  N  29  
UD2  PB     "O1'"   SING  N  N  30  
UD2  "O5'"  "C1'"   SING  N  N  31  
UD2  "C4'"  "O4'"   SING  N  N  32  
UD2  "C4'"  "C3'"   SING  N  N  33  
UD2  "O1'"  "C1'"   SING  N  N  34  
UD2  "C1'"  "C2'"   SING  N  N  35  
UD2  "C3'"  "C2'"   SING  N  N  36  
UD2  "C3'"  "O3'"   SING  N  N  37  
UD2  "C2'"  "N2'"   SING  N  N  38  
UD2  "N2'"  "C7'"   SING  N  N  39  
UD2  "C7'"  "O7'"   DOUB  N  N  40  
UD2  "C7'"  "C8'"   SING  N  N  41  
UD2  "C1'"  "H1'"   SING  N  N  42  
UD2  "C2'"  "H2'"   SING  N  N  43  
UD2  "C3'"  "H3'"   SING  N  N  44  
UD2  "C4'"  "H4'"   SING  N  N  45  
UD2  "C5'"  "H5'"   SING  N  N  46  
UD2  "C6'"  "H6'1"  SING  N  N  47  
UD2  "C6'"  "H6'2"  SING  N  N  48  
UD2  "C8'"  "H8'1"  SING  N  N  49  
UD2  "C8'"  "H8'2"  SING  N  N  50  
UD2  "C8'"  "H8'3"  SING  N  N  51  
UD2  "N2'"  "HN2'"  SING  N  N  52  
UD2  "O3'"  "HO3'"  SING  N  N  53  
UD2  "O4'"  "HO4'"  SING  N  N  54  
UD2  "O6'"  "HO6'"  SING  N  N  55  
UD2  N3     HN3     SING  N  N  56  
UD2  C5     H5      SING  N  N  57  
UD2  C6     H6      SING  N  N  58  
UD2  C1B    H1B     SING  N  N  59  
UD2  C2B    H2B     SING  N  N  60  
UD2  "O2'"  "HO2'"  SING  N  N  61  
UD2  C3B    H3B     SING  N  N  62  
UD2  C4B    H4B     SING  N  N  63  
UD2  O3B    HO3A    SING  N  N  64  
UD2  C5B    "H5'1"  SING  N  N  65  
UD2  C5B    "H5'2"  SING  N  N  66  
UD2  O1A    HOA2    SING  N  N  67  
UD2  O1B    HOB2    SING  N  N  68  
#   #
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
UD2  SMILES            ACDLabs               10.04  "O=P(OC1OC(C(O)C(O)C1NC(=O)C)CO)(O)OP(=O)(O)OCC3OC(N2C=CC(=O)NC2=O)C(O)C3O"  
UD2  SMILES_CANONICAL  CACTVS                3.341  "CC(=O)N[C@@H]1[C@@H](O)[C@@H](O)[C@@H](CO)O[C@@H]1O[P@](O)(=O)O[P@](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O"  
UD2  SMILES            CACTVS                3.341  "CC(=O)N[CH]1[CH](O)[CH](O)[CH](CO)O[CH]1O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O"  
UD2  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "CC(=O)N[C@@H]1[C@H]([C@H]([C@H](O[C@@H]1O[P@@](=O)(O)O[P@@](=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=O)NC3=O)O)O)CO)O)O"  
UD2  SMILES            "OpenEye OEToolkits"  1.5.0  "CC(=O)NC1C(C(C(OC1OP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)N3C=CC(=O)NC3=O)O)O)CO)O)O"  
UD2  InChI             InChI                 1.03   "InChI=1S/C17H27N3O17P2/c1-6(22)18-10-13(26)11(24)7(4-21)35-16(10)36-39(31,32)37-38(29,30)33-5-8-12(25)14(27)15(34-8)20-3-2-9(23)19-17(20)28/h2-3,7-8,10-16,21,24-27H,4-5H2,1H3,(H,18,22)(H,29,30)(H,31,32)(H,19,23,28)/t7-,8-,10-,11+,12-,13-,14-,15-,16-/m1/s1"  
UD2  InChIKey          InChI                 1.03   LFTYTUAZOPRMMI-NESSUJCYSA-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
UD2  "SYSTEMATIC NAME"  ACDLabs               10.04  "(2R,3R,4R,5R,6R)-3-(acetylamino)-4,5-dihydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (non-preferred name)"  
UD2  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "[[(2R,3R,4R,5R,6R)-3-acetamido-4,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy-hydroxy-phosphoryl] [(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl 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
UD2  "Create component"   2001-02-21  RCSB  
UD2  "Modify descriptor"  2011-06-04  RCSB  
UD2  "Modify synonyms"    2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     UD2
_pdbx_chem_comp_synonyms.name        "(2R,3R,4R,5R,6R)-3-(acetylamino)-4,5-dihydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
