data_T5O
#

_chem_comp.id                                   T5O
_chem_comp.name                                 "2'-deoxy-5-methoxyuridine 5'-(dihydrogen phosphate)"
_chem_comp.type                                 "DNA LINKING"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C10 H15 N2 O9 P"
_chem_comp.mon_nstd_parent_comp_id              DU
_chem_comp.pdbx_synonyms                        "5-methoxy-2'-deoxyuridine-5'-phosphate"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2009-08-05
_chem_comp.pdbx_modified_date                   2021-03-01
_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                       338.208
_chem_comp.one_letter_code                      U
_chem_comp.three_letter_code                    T5O
_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       3IJK
_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
T5O  P       P     P  0  1  N  N  N   8.625  18.044  7.485  -4.502   1.064  -0.225  P     T5O   1  
T5O  N1      N1    N  0  1  N  N  N   7.819  14.270  3.369   2.080  -0.315  -0.037  N1    T5O   2  
T5O  C2      C2    C  0  1  N  N  N   7.974  13.326  2.376   2.071   0.260   1.179  C2    T5O   3  
T5O  O2      O2    O  0  1  N  N  N   7.151  12.477  2.132   1.107   0.110   1.906  O2    T5O   4  
T5O  N3      N3    N  0  1  N  N  N   9.133  13.405  1.661   3.113   0.998   1.605  N3    T5O   5  
T5O  C4      C4    C  0  1  N  N  N  10.150  14.311  1.865   4.190   1.175   0.815  C4    T5O   6  
T5O  O4      O4    O  0  1  N  N  N  11.169  14.309  1.189   5.133   1.842   1.201  O4    T5O   7  
T5O  C5      C5    C  0  1  N  N  N   9.949  15.274  2.922   4.216   0.576  -0.472  C5    T5O   8  
T5O  O5      O5    O  0  1  N  N  N  11.002  16.217  3.119   5.294   0.740  -1.289  O5    T5O   9  
T5O  C6      C6    C  0  1  N  N  N   8.805  15.218  3.620   3.156  -0.161  -0.875  C6    T5O  10  
T5O  "C1'"   C1*   C  0  1  N  N  R   6.549  14.221  4.187   0.933  -1.117  -0.469  C1*   T5O  11  
T5O  OP3     OP3   O  0  1  N  N  N   8.178  18.049  8.896  -4.765   2.151  -1.383  OP3   T5O  12  
T5O  "C2'"   C2*   C  0  1  N  N  N   6.622  13.185  5.311   0.740  -2.329   0.470  C2*   T5O  13  
T5O  OP2     OP2   O  0  1  N  N  N  10.059  17.982  7.187  -5.755   0.056  -0.140  OP2   T5O  14  
T5O  "C3'"   C3*   C  0  1  N  N  S   7.060  14.042  6.495  -0.794  -2.477   0.580  C3*   T5O  15  
T5O  "O3'"   O3*   O  0  1  N  N  N   6.737  13.494  7.766  -1.211  -3.749   0.078  O3*   T5O  16  
T5O  "C4'"   C4*   C  0  1  N  N  R   6.180  15.254  6.228  -1.347  -1.338  -0.305  C4*   T5O  17  
T5O  "O4'"   O4*   O  0  1  N  N  N   6.310  15.470  4.802  -0.288  -0.356  -0.345  O4*   T5O  18  
T5O  "C5'"   C5*   C  0  1  N  N  N   6.569  16.508  6.980  -2.606  -0.738   0.323  C5*   T5O  19  
T5O  "O5'"   O5*   O  0  1  N  N  N   7.940  16.802  6.753  -3.166   0.231  -0.565  O5*   T5O  20  
T5O  C7      C7    C  0  1  N  N  N  10.727  17.150  4.165   5.241   0.104  -2.568  C7    T5O  21  
T5O  H6      H6    H  0  1  N  N  N   8.643  15.938  4.409   3.158  -0.628  -1.848  H6    T5O  22  
T5O  "H1'"   H1*   H  0  1  N  N  N   5.746  13.953  3.485   1.070  -1.450  -1.498  H1*   T5O  23  
T5O  HOP3    HOP3  H  0  0  N  N  N   8.628  18.739  9.369  -5.556   2.690  -1.243  HOP3  T5O  24  
T5O  "H2'"   H2*   H  0  1  N  N  N   5.652  12.697  5.489   1.180  -3.224   0.032  H2*   T5O  25  
T5O  "H2'A"  H2*A  H  0  0  N  N  N   7.343  12.384  5.090   1.175  -2.127   1.448  H2*A  T5O  26  
T5O  HOP2    HOP2  H  0  0  N  N  N  10.492  18.746  7.551  -5.923  -0.432  -0.958  HOP2  T5O  27  
T5O  "H3'"   H3*   H  0  1  N  N  N   8.148  14.192  6.552  -1.117  -2.351   1.613  H3*   T5O  28  
T5O  "HO3'"  HO3*  H  0  0  N  N  N   7.039  14.080  8.450  -0.844  -4.502   0.560  HO3*  T5O  29  
T5O  "H4'"   H4*   H  0  1  N  N  N   5.155  15.053  6.574  -1.562  -1.707  -1.308  H4*   T5O  30  
T5O  "H5'"   H5*   H  0  1  N  N  N   5.953  17.349  6.629  -3.334  -1.530   0.503  H5*   T5O  31  
T5O  "H5'A"  H5*A  H  0  0  N  N  N   6.403  16.353  8.056  -2.349  -0.260   1.268  H5*A  T5O  32  
T5O  HC7     HC7   H  0  1  N  N  N  11.572  17.847  4.267   5.136  -0.973  -2.434  HC7   T5O  33  
T5O  HC7A    HC7A  H  0  0  N  N  N   9.814  17.714  3.922   4.388   0.486  -3.128  HC7A  T5O  34  
T5O  HC7B    HC7B  H  0  0  N  N  N  10.583  16.608  5.111   6.160   0.314  -3.116  HC7B  T5O  35  
T5O  HN3     HN3   H  0  1  N  N  N   9.255  12.744  0.921   3.088   1.405   2.486  HN3   T5O  36  
T5O  OP1     OP1   O  0  1  N  N  N   9.639  19.435  8.106  -4.335   1.755   1.073  OP1   T5O  37  
#   #
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
T5O  P      OP3     SING  N  N   1  
T5O  N1     C6      SING  N  N   2  
T5O  N1     "C1'"   SING  N  N   3  
T5O  C2     N1      SING  N  N   4  
T5O  O2     C2      DOUB  N  N   5  
T5O  N3     C2      SING  N  N   6  
T5O  N3     C4      SING  N  N   7  
T5O  N3     HN3     SING  N  N   8  
T5O  C4     C5      SING  N  N   9  
T5O  O4     C4      DOUB  N  N  10  
T5O  C5     O5      SING  N  N  11  
T5O  C5     C6      DOUB  N  N  12  
T5O  O5     C7      SING  N  N  13  
T5O  C6     H6      SING  N  N  14  
T5O  "C1'"  "O4'"   SING  N  N  15  
T5O  "C1'"  "C2'"   SING  N  N  16  
T5O  "C1'"  "H1'"   SING  N  N  17  
T5O  OP3    HOP3    SING  N  N  18  
T5O  "C2'"  "C3'"   SING  N  N  19  
T5O  "C2'"  "H2'"   SING  N  N  20  
T5O  "C2'"  "H2'A"  SING  N  N  21  
T5O  OP2    P       SING  N  N  22  
T5O  OP2    HOP2    SING  N  N  23  
T5O  "C3'"  "O3'"   SING  N  N  24  
T5O  "C3'"  "H3'"   SING  N  N  25  
T5O  "O3'"  "HO3'"  SING  N  N  26  
T5O  "C4'"  "C3'"   SING  N  N  27  
T5O  "C4'"  "C5'"   SING  N  N  28  
T5O  "C4'"  "H4'"   SING  N  N  29  
T5O  "O4'"  "C4'"   SING  N  N  30  
T5O  "C5'"  "H5'"   SING  N  N  31  
T5O  "C5'"  "H5'A"  SING  N  N  32  
T5O  "O5'"  P       SING  N  N  33  
T5O  "O5'"  "C5'"   SING  N  N  34  
T5O  C7     HC7     SING  N  N  35  
T5O  C7     HC7A    SING  N  N  36  
T5O  C7     HC7B    SING  N  N  37  
T5O  P      OP1     DOUB  N  N  38  
#   #
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
T5O  SMILES            ACDLabs               11.02  "O=P(O)(O)OCC2OC(N1C(=O)NC(=O)C(OC)=C1)CC2O"  
T5O  SMILES_CANONICAL  CACTVS                3.352  "COC1=CN([C@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)O2)C(=O)NC1=O"  
T5O  SMILES            CACTVS                3.352  "COC1=CN([CH]2C[CH](O)[CH](CO[P](O)(O)=O)O2)C(=O)NC1=O"  
T5O  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.0  "COC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O"  
T5O  SMILES            "OpenEye OEToolkits"  1.7.0  "COC1=CN(C(=O)NC1=O)C2CC(C(O2)COP(=O)(O)O)O"  
T5O  InChI             InChI                 1.03   "InChI=1S/C10H15N2O9P/c1-19-6-3-12(10(15)11-9(6)14)8-2-5(13)7(21-8)4-20-22(16,17)18/h3,5,7-8,13H,2,4H2,1H3,(H,11,14,15)(H2,16,17,18)/t5-,7+,8+/m0/s1"  
T5O  InChIKey          InChI                 1.03   GEADDYZDICTQHP-UIISKDMLSA-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
T5O  "SYSTEMATIC NAME"  ACDLabs               11.02  "2'-deoxy-5-methoxyuridine 5'-(dihydrogen phosphate)"  
T5O  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.6.1  "[(2R,3S,5R)-3-hydroxy-5-(5-methoxy-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen 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
T5O  "Create component"   2009-08-05  RCSB  
T5O  "Modify descriptor"  2011-06-04  RCSB  
T5O  "Modify synonyms"    2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     T5O
_pdbx_chem_comp_synonyms.name        "5-methoxy-2'-deoxyuridine-5'-phosphate"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
