data_UD9
#

_chem_comp.id                                   UD9
_chem_comp.name                                 "(2R,3S,4R,5S,6R)-3-acetamido-4,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxyoxolan-2-yl]methyl dihydrogen diphosphate (non-preferred name)"
_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                        UDP-N-acetyl-alpha-D-mannosamine
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-06-03
_chem_comp.pdbx_modified_date                   2021-12-24
_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                       607.354
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    UD9
_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       7N41
_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
UD9  C01  C1   C  0  1  N  N  N  20.049  -40.119  -4.596   9.012   0.364  -1.543  C01  UD9   1  
UD9  C02  C2   C  0  1  N  N  N  20.504  -39.565  -5.952   7.513   0.489  -1.619  C02  UD9   2  
UD9  C05  C3   C  0  1  N  N  S  23.023  -40.659  -6.002   5.273  -0.427  -1.333  C05  UD9   3  
UD9  C06  C4   C  0  1  N  N  R  22.908  -42.233  -6.425   4.651  -1.818  -1.486  C06  UD9   4  
UD9  C07  C5   C  0  1  N  N  S  24.293  -42.810  -6.968   4.974  -2.650  -0.241  C07  UD9   5  
UD9  C08  C6   C  0  1  N  N  R  25.471  -42.550  -5.895   4.458  -1.917   1.000  C08  UD9   6  
UD9  C10  C7   C  0  1  N  N  R  24.604  -40.248  -6.375   4.746   0.220  -0.049  C10  UD9   7  
UD9  C20  C8   C  0  1  N  N  N  30.122  -36.852  -5.257  -2.947   2.223   0.440  C20  UD9   8  
UD9  C21  C9   C  0  1  N  N  R  29.320  -35.483  -5.251  -3.935   1.752  -0.629  C21  UD9   9  
UD9  C22  C10  C  0  1  N  N  S  30.294  -34.303  -4.989  -5.320   2.398  -0.404  C22  UD9  10  
UD9  C23  C11  C  0  1  N  N  R  29.300  -33.362  -4.370  -6.320   1.281  -0.777  C23  UD9  11  
UD9  C24  C12  C  0  1  N  N  R  28.616  -34.310  -3.376  -5.421   0.092  -1.184  C24  UD9  12  
UD9  C27  C13  C  0  1  N  N  N  29.902  -35.953  -1.809  -6.429  -2.091  -1.653  C27  UD9  13  
UD9  C28  C14  C  0  1  N  N  N  30.644  -36.226  -0.704  -6.972  -3.255  -1.237  C28  UD9  14  
UD9  C29  C15  C  0  1  N  N  N  31.046  -35.218   0.231  -7.101  -3.497   0.152  C29  UD9  15  
UD9  C32  C16  C  0  1  N  N  N  29.858  -33.664  -1.232  -6.134  -1.414   0.586  C32  UD9  16  
UD9  C36  C17  C  0  1  N  N  N  26.847  -43.172  -6.389   4.830  -2.713   2.253  C36  UD9  17  
UD9  N04  N1   N  0  1  N  N  N  21.815  -39.796  -6.551   6.731  -0.548  -1.259  N04  UD9  18  
UD9  N26  N2   N  0  1  N  N  N  29.468  -34.689  -2.153  -6.010  -1.171  -0.732  N26  UD9  19  
UD9  N31  N3   N  0  1  N  N  N  30.618  -33.968  -0.090  -6.680  -2.562   1.028  N31  UD9  20  
UD9  O03  O1   O  0  1  N  N  N  19.639  -38.872  -6.524   7.009   1.523  -2.005  O03  UD9  21  
UD9  O09  O2   O  0  1  N  N  N  25.582  -41.145  -5.689   5.052  -0.619   1.066  O09  UD9  22  
UD9  O11  O3   O  0  1  N  N  N  25.060  -38.978  -6.617   3.330   0.386  -0.146  O11  UD9  23  
UD9  O13  O4   O  0  1  N  N  N  27.084  -37.223  -7.061   2.991   2.991  -0.026  O13  UD9  24  
UD9  O14  O5   O  0  1  N  N  N  26.887  -39.439  -8.425   2.839   1.550   2.040  O14  UD9  25  
UD9  O15  O6   O  0  1  N  N  N  27.805  -39.469  -6.133   0.952   1.380   0.373  O15  UD9  26  
UD9  O17  O7   O  0  1  N  N  N  29.707  -39.437  -4.525  -0.569   1.335   2.517  O17  UD9  27  
UD9  O18  O8   O  0  1  N  N  N  29.978  -40.160  -7.098  -0.188   3.467   1.220  O18  UD9  28  
UD9  O19  O9   O  0  1  N  N  N  29.826  -37.699  -6.306  -1.647   1.708   0.148  O19  UD9  29  
UD9  O25  O10  O  0  1  N  N  N  28.366  -35.414  -4.162  -4.166   0.331  -0.510  O25  UD9  30  
UD9  O30  O11  O  0  1  N  N  N  31.711  -35.348   1.267  -7.587  -4.539   0.552  O30  UD9  31  
UD9  O33  O12  O  0  1  N  N  N  29.534  -32.496  -1.398  -5.759  -0.581   1.387  O33  UD9  32  
UD9  O34  O13  O  0  1  N  N  N  28.402  -33.138  -5.418  -7.139   1.688  -1.876  O34  UD9  33  
UD9  O35  O14  O  0  1  N  N  N  30.826  -33.842  -6.186  -5.490   3.529  -1.261  O35  UD9  34  
UD9  O37  O15  O  0  1  N  N  N  27.645  -43.496  -5.275   4.250  -2.091   3.401  O37  UD9  35  
UD9  O38  O16  O  0  1  N  N  N  24.179  -44.179  -7.238   4.337  -3.926  -0.341  O38  UD9  36  
UD9  O39  O17  O  0  1  N  N  N  21.927  -42.438  -7.428   5.191  -2.458  -2.644  O39  UD9  37  
UD9  P12  P1   P  0  1  N  N  N  26.843  -38.691  -7.133   2.535   1.576   0.592  P12  UD9  38  
UD9  P16  P2   P  0  1  N  N  N  29.365  -39.393  -6.002  -0.359   2.004   1.068  P16  UD9  39  
UD9  H1   H1   H  0  1  N  N  N  19.021  -39.787  -4.390   9.276  -0.628  -1.177  H1   UD9  40  
UD9  H2   H2   H  0  1  N  N  N  20.081  -41.218  -4.620   9.440   0.512  -2.535  H2   UD9  41  
UD9  H3   H3   H  0  1  N  N  N  20.719  -39.750  -3.806   9.406   1.119  -0.862  H3   UD9  42  
UD9  H4   H4   H  0  1  N  N  N  22.958  -40.631  -4.904   5.002   0.190  -2.189  H4   UD9  43  
UD9  H5   H5   H  0  1  N  N  N  22.643  -42.797  -5.518   3.570  -1.725  -1.592  H5   UD9  44  
UD9  H6   H6   H  0  1  N  N  N  24.551  -42.259  -7.884   6.052  -2.785  -0.163  H6   UD9  45  
UD9  H7   H7   H  0  1  N  N  N  25.187  -43.051  -4.957   3.375  -1.818   0.940  H7   UD9  46  
UD9  H8   H8   H  0  1  N  N  N  24.648  -40.672  -7.389   5.218   1.193   0.088  H8   UD9  47  
UD9  H9   H9   H  0  1  N  N  N  29.900  -37.381  -4.319  -2.913   3.312   0.449  H9   UD9  48  
UD9  H10  H10  H  0  1  N  N  N  31.196  -36.618  -5.301  -3.270   1.862   1.417  H10  UD9  49  
UD9  H11  H11  H  0  1  N  N  N  28.825  -35.347  -6.224  -3.560   1.995  -1.624  H11  UD9  50  
UD9  H12  H12  H  0  1  N  N  N  31.066  -34.597  -4.263  -5.442   2.687   0.640  H12  UD9  51  
UD9  H13  H13  H  0  1  N  N  N  29.744  -32.470  -3.904  -6.937   1.017   0.082  H13  UD9  52  
UD9  H14  H14  H  0  1  N  N  N  27.680  -33.849  -3.029  -5.277   0.078  -2.264  H14  UD9  53  
UD9  H15  H15  H  0  1  N  N  N  29.636  -36.775  -2.457  -6.322  -1.890  -2.709  H15  UD9  54  
UD9  H16  H16  H  0  1  N  N  N  30.944  -37.248  -0.523  -7.303  -3.992  -1.953  H16  UD9  55  
UD9  H17  H17  H  0  1  N  N  N  26.648  -44.082  -6.974   4.453  -3.731   2.162  H17  UD9  56  
UD9  H18  H18  H  0  1  N  N  N  27.375  -42.440  -7.017   5.914  -2.735   2.361  H18  UD9  57  
UD9  H19  H19  H  0  1  N  N  N  21.972  -39.347  -7.430   7.134  -1.375  -0.950  H19  UD9  58  
UD9  H20  H20  H  0  1  N  N  N  30.859  -33.218   0.525  -6.762  -2.722   1.982  H20  UD9  59  
UD9  H21  H21  H  0  1  N  N  N  27.257  -36.887  -7.933   2.821   3.079  -0.974  H21  UD9  60  
UD9  H22  H22  H  0  1  N  N  N  30.410  -40.059  -4.381  -0.688   0.375   2.493  H22  UD9  61  
UD9  H23  H23  H  0  1  N  N  N  27.719  -32.544  -5.129  -7.680   2.469  -1.695  H23  UD9  62  
UD9  H24  H24  H  0  1  N  N  N  31.420  -33.121  -6.012  -6.343   3.973  -1.161  H24  UD9  63  
UD9  H25  H25  H  0  1  N  N  N  28.467  -43.868  -5.571   4.444  -2.543   4.234  H25  UD9  64  
UD9  H26  H26  H  0  1  N  N  N  25.010  -44.509  -7.560   4.499  -4.506   0.415  H26  UD9  65  
UD9  H27  H27  H  0  1  N  N  N  21.091  -42.102  -7.127   4.841  -3.345  -2.803  H27  UD9  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
UD9  O14  P12  DOUB  N  N   1  
UD9  O39  C06  SING  N  N   2  
UD9  O38  C07  SING  N  N   3  
UD9  P12  O13  SING  N  N   4  
UD9  P12  O11  SING  N  N   5  
UD9  P12  O15  SING  N  N   6  
UD9  O18  P16  DOUB  N  N   7  
UD9  C07  C06  SING  N  N   8  
UD9  C07  C08  SING  N  N   9  
UD9  O11  C10  SING  N  N  10  
UD9  N04  C05  SING  N  N  11  
UD9  N04  C02  SING  N  N  12  
UD9  O03  C02  DOUB  N  N  13  
UD9  C06  C05  SING  N  N  14  
UD9  C36  C08  SING  N  N  15  
UD9  C36  O37  SING  N  N  16  
UD9  C10  C05  SING  N  N  17  
UD9  C10  O09  SING  N  N  18  
UD9  O19  P16  SING  N  N  19  
UD9  O19  C20  SING  N  N  20  
UD9  O35  C22  SING  N  N  21  
UD9  O15  P16  SING  N  N  22  
UD9  P16  O17  SING  N  N  23  
UD9  C02  C01  SING  N  N  24  
UD9  C08  O09  SING  N  N  25  
UD9  O34  C23  SING  N  N  26  
UD9  C20  C21  SING  N  N  27  
UD9  C21  C22  SING  N  N  28  
UD9  C21  O25  SING  N  N  29  
UD9  C22  C23  SING  N  N  30  
UD9  C23  C24  SING  N  N  31  
UD9  O25  C24  SING  N  N  32  
UD9  C24  N26  SING  N  N  33  
UD9  N26  C27  SING  N  N  34  
UD9  N26  C32  SING  N  N  35  
UD9  C27  C28  DOUB  N  N  36  
UD9  O33  C32  DOUB  N  N  37  
UD9  C32  N31  SING  N  N  38  
UD9  C28  C29  SING  N  N  39  
UD9  N31  C29  SING  N  N  40  
UD9  C29  O30  DOUB  N  N  41  
UD9  C01  H1   SING  N  N  42  
UD9  C01  H2   SING  N  N  43  
UD9  C01  H3   SING  N  N  44  
UD9  C05  H4   SING  N  N  45  
UD9  C06  H5   SING  N  N  46  
UD9  C07  H6   SING  N  N  47  
UD9  C08  H7   SING  N  N  48  
UD9  C10  H8   SING  N  N  49  
UD9  C20  H9   SING  N  N  50  
UD9  C20  H10  SING  N  N  51  
UD9  C21  H11  SING  N  N  52  
UD9  C22  H12  SING  N  N  53  
UD9  C23  H13  SING  N  N  54  
UD9  C24  H14  SING  N  N  55  
UD9  C27  H15  SING  N  N  56  
UD9  C28  H16  SING  N  N  57  
UD9  C36  H17  SING  N  N  58  
UD9  C36  H18  SING  N  N  59  
UD9  N04  H19  SING  N  N  60  
UD9  N31  H20  SING  N  N  61  
UD9  O13  H21  SING  N  N  62  
UD9  O17  H22  SING  N  N  63  
UD9  O34  H23  SING  N  N  64  
UD9  O35  H24  SING  N  N  65  
UD9  O37  H25  SING  N  N  66  
UD9  O38  H26  SING  N  N  67  
UD9  O39  H27  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
UD9  SMILES            ACDLabs               12.01  "O=C1C=CN(C(=O)N1)C1OC(COP(=O)(O)OP(=O)(O)OC2OC(CO)C(O)C(O)C2NC(C)=O)C(O)C1O"  
UD9  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"  
UD9  InChIKey          InChI                 1.03   LFTYTUAZOPRMMI-ZYQOOJPVSA-N  
UD9  SMILES_CANONICAL  CACTVS                3.385  "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"  
UD9  SMILES            CACTVS                3.385  "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"  
UD9  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CC(=O)N[C@H]1[C@H]([C@@H]([C@H](O[C@@H]1OP(=O)(O)OP(=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=O)NC3=O)O)O)CO)O)O"  
UD9  SMILES            "OpenEye OEToolkits"  2.0.7  "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"  
#   #
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
UD9  "SYSTEMATIC NAME"  ACDLabs               12.01  "(2R,3S,4R,5S,6R)-3-acetamido-4,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxyoxolan-2-yl]methyl dihydrogen diphosphate (non-preferred name)"  
UD9  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "[(2~{R},3~{S},4~{R},5~{S},6~{R})-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl] [[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] hydrogen phosphate"  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     UD9
_pdbx_chem_comp_synonyms.name        UDP-N-acetyl-alpha-D-mannosamine
_pdbx_chem_comp_synonyms.provenance  AUTHOR
_pdbx_chem_comp_synonyms.type        ?
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
UD9  "Create component"  2021-06-03  RCSB  
UD9  "Initial release"   2021-12-29  RCSB  
##
