data_URM
#

_chem_comp.id                                   URM
_chem_comp.name                                 
;(((2S,3R,4S,5R,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-2-yl)methyl)phosphonic
(((2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl)methyl phosphoric)
anhydride
;

_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C16 H26 N2 O16 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "Uridine diphospho methylene galactopyranose"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2010-04-14
_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                       564.329
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    URM
_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       3MJ4
_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
URM  C1    C1    C  0  1  N  N  R  79.365  -69.558  35.837   5.026  -0.023   1.075  C1    URM   1  
URM  C2    C2    C  0  1  N  N  R  79.467  -68.458  36.925   5.891   1.190   0.667  C2    URM   2  
URM  C3    C3    C  0  1  N  N  S  79.700  -69.188  38.239   4.862   2.306   0.383  C3    URM   3  
URM  C4    C4    C  0  1  N  N  R  80.390  -70.477  37.785   3.496   1.636   0.653  C4    URM   4  
URM  C5    C5    C  0  1  N  N  N  80.357  -71.674  38.756   2.452   2.132  -0.350  C5    URM   5  
URM  O6    O6    O  0  1  N  N  N  80.082  -70.680  36.396   3.737   0.224   0.472  O6    URM   6  
URM  O7    O7    O  0  1  N  N  N  80.586  -68.422  39.040   5.062   3.409   1.270  O7    URM   7  
URM  O8    O8    O  0  1  N  N  N  79.098  -72.344  38.594   1.173   1.591  -0.012  O8    URM   8  
URM  P9    P9    P  0  1  N  N  N  78.239  -72.851  39.835  -0.162   1.903  -0.856  P9    URM   9  
URM  O10   O10   O  0  1  N  N  N  78.951  -72.520  41.102  -0.017   1.287  -2.336  O10   URM  10  
URM  O11   O11   O  0  1  N  N  N  78.212  -74.337  39.716  -0.355   3.367  -0.948  O11   URM  11  
URM  O12   O12   O  0  1  N  N  N  76.816  -72.133  39.807  -1.430   1.239  -0.120  O12   URM  12  
URM  N13   N13   N  0  1  N  N  N  78.038  -69.876  35.359   5.605  -1.263   0.550  N13   URM  13  
URM  N15   N15   N  0  1  N  N  N  76.323  -69.488  33.812   6.247  -2.562  -1.289  N15   URM  14  
URM  C17   C17   C  0  1  N  N  N  75.997  -70.958  35.702   6.553  -3.379   0.933  C17   URM  15  
URM  C18   C18   C  0  1  N  N  N  77.253  -70.708  36.094   6.019  -2.237   1.416  C18   URM  16  
URM  C19   C19   C  0  1  N  N  N  77.464  -69.390  34.345   5.720  -1.434  -0.780  C19   URM  17  
URM  O19   O19   O  0  1  N  N  N  78.297  -68.496  33.599   5.340  -0.557  -1.532  O19   URM  18  
URM  C20   C20   C  0  1  N  N  N  75.495  -70.308  34.485   6.672  -3.544  -0.468  C20   URM  19  
URM  O20   O20   O  0  1  N  N  N  74.342  -70.503  34.129   7.150  -4.566  -0.928  O20   URM  20  
URM  O21   O21   O  0  1  N  N  N  80.466  -67.468  36.658   6.759   1.568   1.737  O21   URM  21  
URM  P22   P22   P  0  1  N  N  N  76.323  -70.889  40.687  -3.024   1.423  -0.254  P22   URM  22  
URM  O23   O23   O  0  1  N  N  N  77.292  -69.824  41.079  -3.417   2.951   0.069  O23   URM  23  
URM  O24   O24   O  0  1  N  N  N  75.365  -70.216  39.764  -3.445   1.086  -1.632  O24   URM  24  
URM  O36   O36   O  0  1  N  N  N  75.078  -73.543  42.087  -5.705  -0.110  -0.581  O36   URM  25  
URM  C37   C37   C  0  1  N  N  R  75.941  -73.821  43.222  -5.302  -1.464  -0.794  C37   URM  26  
URM  C38   C38   C  0  1  N  N  R  75.116  -73.792  44.539  -6.011  -2.371   0.215  C38   URM  27  
URM  C39   C39   C  0  1  N  N  S  74.471  -72.384  44.685  -5.679  -1.901   1.635  C39   URM  28  
URM  C40   C40   C  0  1  N  N  R  73.591  -72.090  43.443  -6.089  -0.433   1.783  C40   URM  29  
URM  C41   C41   C  0  1  N  N  S  74.418  -72.255  42.135  -5.377   0.400   0.714  C41   URM  30  
URM  O42   O42   O  0  1  N  N  N  74.072  -74.794  44.566  -7.423  -2.303   0.008  O42   URM  31  
URM  O43   O43   O  0  1  N  N  N  73.623  -72.324  45.851  -6.394  -2.696   2.582  O43   URM  32  
URM  O44   O44   O  0  1  N  N  N  72.924  -70.808  43.512  -5.718   0.038   3.080  O44   URM  33  
URM  C45   C45   C  0  1  N  N  N  75.489  -71.307  41.986  -3.865   0.317   0.927  C45   URM  34  
URM  C46   C46   C  0  1  N  N  N  76.628  -75.192  42.971  -5.677  -1.890  -2.214  C46   URM  35  
URM  O47   O47   O  0  1  N  N  N  77.309  -75.659  44.156  -4.927  -1.120  -3.156  O47   URM  36  
URM  H1    H1    H  0  1  N  N  N  79.807  -69.201  34.895   4.934  -0.076   2.159  H1    URM  37  
URM  H2    H2    H  0  1  N  N  N  78.538  -67.869  36.954   6.467   0.964  -0.231  H2    URM  38  
URM  H3    H3    H  0  1  N  N  N  78.788  -69.364  38.828   4.930   2.634  -0.654  H3    URM  39  
URM  H4    H4    H  0  1  N  N  N  81.482  -70.357  37.849   3.169   1.839   1.673  H4    URM  40  
URM  H5    H5    H  0  1  N  N  N  81.182  -72.365  38.528   2.406   3.220  -0.318  H5    URM  41  
URM  H5A   H5A   H  0  1  N  N  N  80.463  -71.320  39.792   2.730   1.809  -1.353  H5A   URM  42  
URM  HO7   HO7   H  0  1  N  N  N  80.737  -68.871  39.864   5.929   3.830   1.184  HO7   URM  43  
URM  HO10  HO10  H  0  0  N  N  N  79.219  -73.322  41.534   0.113   0.329  -2.353  HO10  URM  44  
URM  H17   H17   H  0  1  N  N  N  75.366  -71.625  36.270   6.885  -4.156   1.605  H17   URM  45  
URM  H18   H18   H  0  1  N  N  N  77.641  -71.166  36.992   5.921  -2.093   2.482  H18   URM  46  
URM  HO21  HO21  H  0  0  N  N  N  80.474  -66.828  37.360   7.325   2.326   1.535  HO21  URM  47  
URM  HO23  HO23  H  0  0  N  N  N  77.057  -69.009  40.651  -3.170   3.241   0.957  HO23  URM  48  
URM  H37   H37   H  0  1  N  N  N  76.721  -73.053  43.331  -4.223  -1.547  -0.662  H37   URM  49  
URM  H38   H38   H  0  1  N  N  N  75.801  -74.012  45.371  -5.672  -3.399   0.083  H38   URM  50  
URM  H39   H39   H  0  1  N  N  N  75.282  -71.646  44.780  -4.607  -2.000   1.811  H39   URM  51  
URM  H40   H40   H  0  1  N  N  N  72.784  -72.837  43.432  -7.168  -0.342   1.658  H40   URM  52  
URM  H41   H41   H  0  1  N  N  N  73.666  -72.115  41.344  -5.699   1.439   0.788  H41   URM  53  
URM  HO42  HO42  H  0  0  N  N  N  73.598  -74.736  45.387  -7.705  -2.583  -0.873  HO42  URM  54  
URM  HO43  HO43  H  0  0  N  N  N  73.240  -71.457  45.921  -6.188  -3.639   2.539  HO43  URM  55  
URM  HO44  HO44  H  0  0  N  N  N  72.401  -70.680  42.729  -6.129  -0.448   3.808  HO44  URM  56  
URM  H45   H45   H  0  1  N  N  N  76.263  -71.697  42.664  -3.530  -0.708   0.766  H45   URM  57  
URM  H45A  H45A  H  0  0  N  N  N  75.028  -70.359  42.302  -3.624   0.622   1.945  H45A  URM  58  
URM  H46   H46   H  0  1  N  N  N  75.862  -75.928  42.687  -5.450  -2.948  -2.348  H46   URM  59  
URM  H46A  H46A  H  0  0  N  N  N  77.362  -75.080  42.159  -6.742  -1.724  -2.375  H46A  URM  60  
URM  HO47  HO47  H  0  0  N  N  N  77.720  -76.497  43.976  -5.114  -1.338  -4.080  HO47  URM  61  
URM  HN15  HN15  H  0  0  N  N  N  76.062  -69.006  32.976   6.322  -2.670  -2.250  HN15  URM  62  
#   #
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
URM  N13  C1    SING  N  N   1  
URM  C1   O6    SING  N  N   2  
URM  C1   C2    SING  N  N   3  
URM  C1   H1    SING  N  N   4  
URM  O21  C2    SING  N  N   5  
URM  C2   C3    SING  N  N   6  
URM  C2   H2    SING  N  N   7  
URM  C4   C3    SING  N  N   8  
URM  C3   O7    SING  N  N   9  
URM  C3   H3    SING  N  N  10  
URM  O6   C4    SING  N  N  11  
URM  C4   C5    SING  N  N  12  
URM  C4   H4    SING  N  N  13  
URM  O8   C5    SING  N  N  14  
URM  C5   H5    SING  N  N  15  
URM  C5   H5A   SING  N  N  16  
URM  O7   HO7   SING  N  N  17  
URM  O8   P9    SING  N  N  18  
URM  O11  P9    DOUB  N  N  19  
URM  O12  P9    SING  N  N  20  
URM  P9   O10   SING  N  N  21  
URM  O10  HO10  SING  N  N  22  
URM  O12  P22   SING  N  N  23  
URM  C19  N13   SING  N  N  24  
URM  N13  C18   SING  N  N  25  
URM  N15  C19   SING  N  N  26  
URM  N15  C20   SING  N  N  27  
URM  C20  C17   SING  N  N  28  
URM  C17  C18   DOUB  N  N  29  
URM  C17  H17   SING  N  N  30  
URM  C18  H18   SING  N  N  31  
URM  O19  C19   DOUB  N  N  32  
URM  O20  C20   DOUB  N  N  33  
URM  O21  HO21  SING  N  N  34  
URM  O24  P22   DOUB  N  N  35  
URM  P22  O23   SING  N  N  36  
URM  P22  C45   SING  N  N  37  
URM  O23  HO23  SING  N  N  38  
URM  O36  C41   SING  N  N  39  
URM  O36  C37   SING  N  N  40  
URM  C46  C37   SING  N  N  41  
URM  C37  C38   SING  N  N  42  
URM  C37  H37   SING  N  N  43  
URM  C38  O42   SING  N  N  44  
URM  C38  C39   SING  N  N  45  
URM  C38  H38   SING  N  N  46  
URM  C40  C39   SING  N  N  47  
URM  C39  O43   SING  N  N  48  
URM  C39  H39   SING  N  N  49  
URM  C41  C40   SING  N  N  50  
URM  C40  O44   SING  N  N  51  
URM  C40  H40   SING  N  N  52  
URM  C45  C41   SING  N  N  53  
URM  C41  H41   SING  N  N  54  
URM  O42  HO42  SING  N  N  55  
URM  O43  HO43  SING  N  N  56  
URM  O44  HO44  SING  N  N  57  
URM  C45  H45   SING  N  N  58  
URM  C45  H45A  SING  N  N  59  
URM  C46  O47   SING  N  N  60  
URM  C46  H46   SING  N  N  61  
URM  C46  H46A  SING  N  N  62  
URM  O47  HO47  SING  N  N  63  
URM  N15  HN15  SING  N  N  64  
#   #
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
URM  SMILES_CANONICAL  CACTVS                3.370  "OC[C@H]1O[C@H](C[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O)[C@H](O)[C@@H](O)[C@H]1O"  
URM  SMILES            CACTVS                3.370  "OC[CH]1O[CH](C[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O)[CH](O)[CH](O)[CH]1O"  
URM  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.0  "C1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P@@](=O)(O)O[P@@](=O)(C[C@@H]3[C@@H]([C@H]([C@H]([C@H](O3)CO)O)O)O)O)O)O"  
URM  SMILES            "OpenEye OEToolkits"  1.7.0  "C1=CN(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)OP(=O)(CC3C(C(C(C(O3)CO)O)O)O)O)O)O"  
URM  InChI             InChI                 1.03   "InChI=1S/C16H26N2O16P2/c19-3-6-10(21)13(24)12(23)8(32-6)5-35(27,28)34-36(29,30)31-4-7-11(22)14(25)15(33-7)18-2-1-9(20)17-16(18)26/h1-2,6-8,10-15,19,21-25H,3-5H2,(H,27,28)(H,29,30)(H,17,20,26)/t6-,7-,8-,10+,11-,12+,13+,14-,15-/m1/s1"  
URM  InChIKey          InChI                 1.03   WUPLBUVQIJIOHV-PPSAJGQHSA-N  
#
_pdbx_chem_comp_identifier.comp_id          URM
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  1.7.0
_pdbx_chem_comp_identifier.identifier       "[[(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-[[(2S,3R,4S,5R,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]methyl]phosphinic acid"
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
URM  "Create component"   2010-04-14  RCSB  
URM  "Modify descriptor"  2011-06-04  RCSB  
URM  "Modify synonyms"    2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     URM
_pdbx_chem_comp_synonyms.name        "Uridine diphospho methylene galactopyranose"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
