data_UY4
#

_chem_comp.id                                   UY4
_chem_comp.name                                 "(2S,3S)-2-{[(9-{(2R,3R,4S,5R)-3,4-dihydroxy-5-[(phosphonooxy)methyl]tetrahydrofuran-2-yl}-9H-purin-6-yl)carbamoyl]amino}-3-hydroxybutanoic acid"
_chem_comp.type                                 "RNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C15 H21 N6 O11 P"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-06-04
_chem_comp.pdbx_modified_date                   2020-10-02
_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                       492.335
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    UY4
_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       6XA1
_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
UY4  C4     C1   C  0  1  Y  N  N  250.387  294.231  206.137   0.036  -1.085  -0.581  C4     UY4   1  
UY4  C6     C2   C  0  1  Y  N  N  251.964  295.597  204.754   2.346  -0.409  -0.455  C6     UY4   2  
UY4  C2     C3   C  0  1  Y  N  N  252.380  293.316  205.303   1.704  -2.347  -1.530  C2     UY4   3  
UY4  C02    C4   C  0  1  N  N  N  255.516  295.238  201.010   7.588  -0.128   0.739  C02    UY4   4  
UY4  C04    C5   C  0  1  N  N  S  255.623  295.853  202.488   6.997   0.792  -0.298  C04    UY4   5  
UY4  C05    C6   C  0  1  N  N  S  256.712  295.102  203.287   7.784   2.104  -0.324  C05    UY4   6  
UY4  C07    C7   C  0  1  N  N  N  258.090  295.400  202.680   9.215   1.831  -0.793  C07    UY4   7  
UY4  C09    C8   C  0  1  N  N  N  253.545  296.836  203.407   4.630   0.215  -0.357  C09    UY4   8  
UY4  "C1'"  C9   C  0  1  N  N  R  248.502  293.368  207.528  -2.482  -1.227  -0.362  "C1'"  UY4   9  
UY4  "C2'"  C10  C  0  1  N  N  R  249.354  293.089  208.736  -2.793  -2.228   0.773  "C2'"  UY4  10  
UY4  "C3'"  C11  C  0  1  N  N  S  248.989  294.228  209.656  -4.311  -2.063   1.013  "C3'"  UY4  11  
UY4  "C4'"  C12  C  0  1  N  N  R  247.535  294.502  209.349  -4.737  -0.983  -0.006  "C4'"  UY4  12  
UY4  C5     C13  C  0  1  Y  N  N  250.711  295.515  205.517   1.000  -0.160  -0.145  C5     UY4  13  
UY4  "C5'"  C14  C  0  1  N  N  N  247.291  296.000  209.274  -5.804  -0.070   0.601  "C5'"  UY4  14  
UY4  C8     C15  C  0  1  Y  N  N  248.825  295.667  206.557  -0.935   0.562   0.518  C8     UY4  15  
UY4  N08    N1   N  0  1  N  N  N  254.368  295.735  203.259   5.597   1.068   0.035  N08    UY4  16  
UY4  N1     N2   N  0  1  Y  N  N  252.761  294.446  204.698   2.645  -1.504  -1.144  N1     UY4  17  
UY4  N3     N3   N  0  1  Y  N  N  251.243  293.197  205.997   0.430  -2.156  -1.261  N3     UY4  18  
UY4  N6     N4   N  0  1  N  N  N  252.326  296.749  204.164   3.343   0.470  -0.051  N6     UY4  19  
UY4  N7     N5   N  0  1  Y  N  N  249.715  296.354  205.809   0.340   0.820   0.519  N7     UY4  20  
UY4  N9     N6   N  0  1  Y  N  N  249.221  294.402  206.751  -1.174  -0.603  -0.148  N9     UY4  21  
UY4  O01    O1   O  0  1  N  N  N  256.363  295.551  200.161   6.910  -0.513   1.662  O01    UY4  22  
UY4  O03    O2   O  0  1  N  N  N  254.591  294.448  200.700   8.868  -0.519   0.638  O03    UY4  23  
UY4  O06    O3   O  0  1  N  N  N  256.441  293.731  203.240   7.812   2.668   0.988  O06    UY4  24  
UY4  "O2'"  O4   O  0  1  N  N  N  248.921  291.862  209.320  -2.493  -3.562   0.360  "O2'"  UY4  25  
UY4  O29    O5   O  0  1  N  N  N  253.859  297.896  202.886   4.919  -0.783  -0.987  O29    UY4  26  
UY4  "O3'"  O6   O  0  1  N  N  N  249.180  293.865  211.019  -4.994  -3.292   0.756  "O3'"  UY4  27  
UY4  "O4'"  O7   O  0  1  N  N  N  247.300  293.910  208.072  -3.531  -0.237  -0.280  "O4'"  UY4  28  
UY4  "O5'"  O8   O  0  1  N  N  N  245.936  296.267  209.605  -6.268   0.847  -0.392  "O5'"  UY4  29  
UY4  OP1    O9   O  0  1  N  N  N  244.300  298.061  210.242  -7.763   2.721  -1.471  OP1    UY4  30  
UY4  OP2    O10  O  0  1  N  N  N  246.248  298.566  208.579  -8.608   1.301   0.437  OP2    UY4  31  
UY4  P      P1   P  0  1  N  N  N  245.215  297.620  209.127  -7.396   1.958  -0.101  P      UY4  32  
UY4  OP3    O11  O  0  1  N  Y  N  244.297  297.027  207.975  -6.840   3.020   0.973  OP3    UY4  33  
UY4  H1     H1   H  0  1  N  N  N  253.025  292.453  205.227   1.992  -3.228  -2.085  H1     UY4  34  
UY4  H2     H2   H  0  1  N  N  N  255.910  296.911  202.401   7.051   0.316  -1.278  H2     UY4  35  
UY4  H3     H3   H  0  1  N  N  N  256.698  295.465  204.325   7.304   2.802  -1.010  H3     UY4  36  
UY4  H4     H4   H  0  1  N  N  N  258.865  294.865  203.249   9.193   1.400  -1.794  H4     UY4  37  
UY4  H5     H5   H  0  1  N  N  N  258.109  295.066  201.632   9.775   2.766  -0.812  H5     UY4  38  
UY4  H6     H6   H  0  1  N  N  N  258.284  296.482  202.724   9.695   1.133  -0.107  H6     UY4  39  
UY4  H7     H7   H  0  1  N  N  N  248.329  292.457  206.937  -2.510  -1.730  -1.329  H7     UY4  40  
UY4  H8     H8   H  0  1  N  N  N  250.426  293.093  208.489  -2.232  -1.972   1.672  H8     UY4  41  
UY4  H9     H9   H  0  1  N  N  N  249.591  295.113  209.401  -4.502  -1.727   2.032  H9     UY4  42  
UY4  H10    H10  H  0  1  N  N  N  246.894  294.054  210.123  -5.111  -1.448  -0.918  H10    UY4  43  
UY4  H11    H11  H  0  1  N  N  N  247.953  296.517  209.985  -6.639  -0.674   0.957  H11    UY4  44  
UY4  H12    H12  H  0  1  N  N  N  247.498  296.356  208.254  -5.376   0.485   1.436  H12    UY4  45  
UY4  H13    H13  H  0  1  N  N  N  247.910  296.085  206.949  -1.693   1.179   0.977  H13    UY4  46  
UY4  H14    H14  H  0  1  N  N  N  254.114  294.861  203.673   5.367   1.865   0.537  H14    UY4  47  
UY4  H15    H15  H  0  1  N  N  N  251.741  297.555  204.253   3.112   1.267   0.452  H15    UY4  48  
UY4  H16    H16  H  0  1  N  N  N  254.687  294.189  199.791   9.202  -1.109   1.328  H16    UY4  49  
UY4  H17    H17  H  0  1  N  N  N  257.105  293.259  203.729   8.226   2.101   1.652  H17    UY4  50  
UY4  H18    H18  H  0  1  N  N  N  249.450  291.671  210.086  -2.670  -4.232   1.035  H18    UY4  51  
UY4  H19    H19  H  0  1  N  N  N  248.944  294.596  211.578  -4.720  -4.021   1.328  H19    UY4  52  
UY4  H20    H20  H  0  1  N  N  N  244.503  298.957  210.483  -8.438   3.406  -1.371  H20    UY4  53  
UY4  H21    H21  H  0  1  N  N  N  244.570  297.382  207.137  -6.044   3.489   0.686  H21    UY4  54  
#   #
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
UY4  O01    C02    DOUB  N  N   1  
UY4  O03    C02    SING  N  N   2  
UY4  C02    C04    SING  N  N   3  
UY4  C04    N08    SING  N  N   4  
UY4  C04    C05    SING  N  N   5  
UY4  C07    C05    SING  N  N   6  
UY4  O29    C09    DOUB  N  N   7  
UY4  O06    C05    SING  N  N   8  
UY4  N08    C09    SING  N  N   9  
UY4  C09    N6     SING  N  N  10  
UY4  N6     C6     SING  N  N  11  
UY4  N1     C6     DOUB  Y  N  12  
UY4  N1     C2     SING  Y  N  13  
UY4  C6     C5     SING  Y  N  14  
UY4  C2     N3     DOUB  Y  N  15  
UY4  C5     N7     SING  Y  N  16  
UY4  C5     C4     DOUB  Y  N  17  
UY4  N7     C8     DOUB  Y  N  18  
UY4  N3     C4     SING  Y  N  19  
UY4  C4     N9     SING  Y  N  20  
UY4  C8     N9     SING  Y  N  21  
UY4  N9     "C1'"  SING  N  N  22  
UY4  "C1'"  "O4'"  SING  N  N  23  
UY4  "C1'"  "C2'"  SING  N  N  24  
UY4  "O4'"  "C4'"  SING  N  N  25  
UY4  OP2    P      DOUB  N  N  26  
UY4  "C2'"  "O2'"  SING  N  N  27  
UY4  "C2'"  "C3'"  SING  N  N  28  
UY4  P      "O5'"  SING  N  N  29  
UY4  P      OP1    SING  N  N  30  
UY4  "C5'"  "C4'"  SING  N  N  31  
UY4  "C5'"  "O5'"  SING  N  N  32  
UY4  "C4'"  "C3'"  SING  N  N  33  
UY4  "C3'"  "O3'"  SING  N  N  34  
UY4  P      OP3    SING  N  N  35  
UY4  C2     H1     SING  N  N  36  
UY4  C04    H2     SING  N  N  37  
UY4  C05    H3     SING  N  N  38  
UY4  C07    H4     SING  N  N  39  
UY4  C07    H5     SING  N  N  40  
UY4  C07    H6     SING  N  N  41  
UY4  "C1'"  H7     SING  N  N  42  
UY4  "C2'"  H8     SING  N  N  43  
UY4  "C3'"  H9     SING  N  N  44  
UY4  "C4'"  H10    SING  N  N  45  
UY4  "C5'"  H11    SING  N  N  46  
UY4  "C5'"  H12    SING  N  N  47  
UY4  C8     H13    SING  N  N  48  
UY4  N08    H14    SING  N  N  49  
UY4  N6     H15    SING  N  N  50  
UY4  O03    H16    SING  N  N  51  
UY4  O06    H17    SING  N  N  52  
UY4  "O2'"  H18    SING  N  N  53  
UY4  "O3'"  H19    SING  N  N  54  
UY4  OP1    H20    SING  N  N  55  
UY4  OP3    H21    SING  N  N  56  
#   #
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
UY4  SMILES            ACDLabs               12.01  "c23n(C1OC(C(C1O)O)COP(O)(=O)O)cnc2c(ncn3)NC(NC(C(=O)O)C(C)O)=O"  
UY4  InChI             InChI                 1.03   "InChI=1S/C15H21N6O11P/c1-5(22)7(14(25)26)19-15(27)20-11-8-12(17-3-16-11)21(4-18-8)13-10(24)9(23)6(32-13)2-31-33(28,29)30/h3-7,9-10,13,22-24H,2H2,1H3,(H,25,26)(H2,28,29,30)(H2,16,17,19,20,27)/t5-,6+,7-,9+,10+,13+/m0/s1"  
UY4  InChIKey          InChI                 1.03   BHFCEFYJTLMMEQ-SDZKHPBCSA-N  
UY4  SMILES_CANONICAL  CACTVS                3.385  "C[C@H](O)[C@H](NC(=O)Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]3O)C(O)=O"  
UY4  SMILES            CACTVS                3.385  "C[CH](O)[CH](NC(=O)Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3O)C(O)=O"  
UY4  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "C[C@@H]([C@@H](C(=O)O)NC(=O)Nc1c2c(ncn1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)O)O"  
UY4  SMILES            "OpenEye OEToolkits"  2.0.7  "CC(C(C(=O)O)NC(=O)Nc1c2c(ncn1)n(cn2)C3C(C(C(O3)COP(=O)(O)O)O)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
UY4  "SYSTEMATIC NAME"  ACDLabs               12.01  "(2S,3S)-2-{[(9-{(2R,3R,4S,5R)-3,4-dihydroxy-5-[(phosphonooxy)methyl]tetrahydrofuran-2-yl}-9H-purin-6-yl)carbamoyl]amino}-3-hydroxybutanoic acid (non-preferred name)"  
UY4  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "(2~{S},3~{S})-2-[[9-[(2~{R},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]purin-6-yl]carbamoylamino]-3-oxidanyl-butanoic 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
UY4  "Create component"  2020-06-04  RCSB  
UY4  "Initial release"   2020-10-07  RCSB  
##
