data_85T
#

_chem_comp.id                                   85T
_chem_comp.name                                 "4-amino-1-{2-cyano-2-deoxy-5-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-arabinofuranosyl}pyrimidin-2(1H)-one"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C10 H15 N4 O13 P3"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-09-08
_chem_comp.pdbx_modified_date                   2021-10-22
_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                       492.166
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    85T
_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       7S2Y
_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
85T  PA     P1   P  0  1  N  N  N  -20.538   5.852  43.571  -1.516   1.482  -0.662  PA     85T   1  
85T  O1A    O1   O  0  1  N  N  N  -19.219   6.468  43.879  -1.241   1.093  -2.063  O1A    85T   2  
85T  O2A    O2   O  0  1  N  N  N  -21.624   5.782  44.642  -2.098   2.982  -0.625  O2A    85T   3  
85T  O3B    O3   O  0  1  N  N  N  -22.897   5.511  40.978  -4.846  -0.705   0.655  O3B    85T   4  
85T  O2B    O4   O  0  1  N  N  N  -23.370   7.066  42.938  -4.689   0.734  -1.412  O2B    85T   5  
85T  N01    N1   N  0  1  N  N  N  -21.153   1.027  41.326   4.853   1.143  -2.226  N01    85T   6  
85T  C02    C1   C  0  1  N  N  N  -20.084   0.940  41.768   4.703   1.363  -1.122  C02    85T   7  
85T  "C2'"  C2   C  0  1  N  N  S  -18.801   0.865  42.418   4.509   1.648   0.309  "C2'"  85T   8  
85T  "C3'"  C3   C  0  1  N  N  S  -18.002   2.153  41.990   3.381   2.688   0.517  "C3'"  85T   9  
85T  "O3'"  O5   O  0  1  N  N  N  -16.568   1.774  41.990   3.694   3.552   1.612  "O3'"  85T  10  
85T  "C4'"  C4   C  0  1  N  N  R  -18.112   2.982  42.931   2.138   1.837   0.840  "C4'"  85T  11  
85T  "C5'"  C5   C  0  1  N  N  N  -18.809   4.207  42.513   1.035   2.118  -0.182  "C5'"  85T  12  
85T  "O5'"  O6   O  0  1  N  N  N  -20.172   4.254  43.062  -0.152   1.415   0.191  "O5'"  85T  13  
85T  O3A    O7   O  0  1  N  N  N  -20.982   6.785  42.262  -2.596   0.471  -0.026  O3A    85T  14  
85T  PB     P2   P  0  1  N  N  N  -22.467   6.890  41.749  -3.933  -0.231  -0.583  PB     85T  15  
85T  O1B    O8   O  0  1  N  N  N  -22.518   7.954  40.740  -3.536  -1.510  -1.477  O1B    85T  16  
85T  PG     P3   P  0  1  N  N  N  -23.430   5.438  39.380  -6.381  -1.170   0.800  PG     85T  17  
85T  O1G    O9   O  0  1  N  N  N  -24.918   5.318  39.437  -6.713  -2.120  -0.285  O1G    85T  18  
85T  O2G    O10  O  0  1  N  N  N  -22.943   4.137  38.723  -6.592  -1.889   2.225  O2G    85T  19  
85T  O3G    O11  O  0  1  N  N  N  -22.921   6.729  38.656  -7.343   0.117   0.701  O3G    85T  20  
85T  "O4'"  O12  O  0  1  N  N  N  -19.198   2.335  44.007   2.533   0.457   0.764  "O4'"  85T  21  
85T  "C1'"  C6   C  0  1  N  N  R  -18.943   1.091  43.965   3.948   0.407   1.049  "C1'"  85T  22  
85T  N1     N2   N  0  1  N  N  N  -20.161   0.460  44.586   4.539  -0.823   0.516  N1     85T  23  
85T  C6     C7   C  0  1  N  N  N  -21.381   1.077  44.556   3.877  -1.534  -0.439  C6     85T  24  
85T  C5     C8   C  0  1  N  N  N  -22.480   0.444  45.079   4.433  -2.669  -0.924  C5     85T  25  
85T  C4     C9   C  0  1  N  N  N  -22.229  -0.776  45.664   5.685  -3.083  -0.425  C4     85T  26  
85T  N4     N3   N  0  1  N  N  N  -23.271  -1.534  46.294   6.274  -4.233  -0.900  N4     85T  27  
85T  N3     N4   N  0  1  N  N  N  -20.981  -1.328  45.691   6.293  -2.359   0.505  N3     85T  28  
85T  C2     C10  C  0  1  N  N  N  -19.944  -0.702  45.145   5.735  -1.241   0.969  C2     85T  29  
85T  O2     O13  O  0  1  N  N  N  -18.804  -1.191  45.149   6.316  -0.590   1.820  O2     85T  30  
85T  H1     H1   H  0  1  N  N  N  -21.302   6.173  45.446  -2.301   3.304   0.264  H1     85T  31  
85T  H2     H2   H  0  1  N  N  N  -18.241  -0.054  42.190   5.439   1.986   0.766  H2     85T  32  
85T  H3     H3   H  0  1  N  N  N  -18.333   2.501  41.000   3.224   3.267  -0.392  H3     85T  33  
85T  H4     H4   H  0  1  N  N  N  -16.042   2.523  41.736   4.501   4.069   1.486  H4     85T  34  
85T  H5     H5   H  0  1  N  N  N  -17.178   3.213  43.464   1.781   2.068   1.844  H5     85T  35  
85T  H7     H7   H  0  1  N  N  N  -18.246   5.081  42.873   0.829   3.188  -0.209  H7     85T  36  
85T  H8     H8   H  0  1  N  N  N  -18.863   4.233  41.415   1.360   1.786  -1.168  H8     85T  37  
85T  H9     H9   H  0  1  N  N  N  -23.143   8.617  41.010  -3.037  -2.185  -0.998  H9     85T  38  
85T  H10    H10  H  0  1  N  N  N  -23.690   3.586  38.518  -7.495  -2.196   2.381  H10    85T  39  
85T  H11    H11  H  0  1  N  N  N  -23.665   7.242  38.362  -7.181   0.783   1.383  H11    85T  40  
85T  H13    H13  H  0  1  N  N  N  -18.024   0.779  44.483   4.127   0.487   2.122  H13    85T  41  
85T  H14    H14  H  0  1  N  N  N  -21.479   2.061  44.121   2.919  -1.196  -0.805  H14    85T  42  
85T  H15    H15  H  0  1  N  N  N  -23.471   0.872  45.035   3.926  -3.249  -1.681  H15    85T  43  
85T  H16    H16  H  0  1  N  N  N  -23.061  -2.414  46.720   5.827  -4.760  -1.581  H16    85T  44  
85T  H17    H17  H  0  1  N  N  N  -24.207  -1.182  46.307   7.135  -4.515  -0.555  H17    85T  45  
#   #
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
85T  PA     O1A    DOUB  N  N   1  
85T  PA     O2A    SING  N  N   2  
85T  PA     "O5'"  SING  N  N   3  
85T  PA     O3A    SING  N  N   4  
85T  O3B    PB     SING  N  N   5  
85T  O3B    PG     SING  N  N   6  
85T  O2B    PB     DOUB  N  N   7  
85T  N01    C02    TRIP  N  N   8  
85T  C02    "C2'"  SING  N  N   9  
85T  "C2'"  "C3'"  SING  N  N  10  
85T  "C2'"  "C1'"  SING  N  N  11  
85T  "C3'"  "O3'"  SING  N  N  12  
85T  "C3'"  "C4'"  SING  N  N  13  
85T  "C4'"  "C5'"  SING  N  N  14  
85T  "C5'"  "O5'"  SING  N  N  15  
85T  O3A    PB     SING  N  N  16  
85T  PB     O1B    SING  N  N  17  
85T  PG     O1G    DOUB  N  N  18  
85T  PG     O2G    SING  N  N  19  
85T  PG     O3G    SING  N  N  20  
85T  "O4'"  "C1'"  SING  N  N  21  
85T  "C1'"  N1     SING  N  N  22  
85T  N1     C6     SING  N  N  23  
85T  N1     C2     SING  N  N  24  
85T  C6     C5     DOUB  N  N  25  
85T  C5     C4     SING  N  N  26  
85T  C4     N4     SING  N  N  27  
85T  C4     N3     DOUB  N  N  28  
85T  N3     C2     SING  N  N  29  
85T  C2     O2     DOUB  N  N  30  
85T  O2A    H1     SING  N  N  31  
85T  "C2'"  H2     SING  N  N  32  
85T  "C3'"  H3     SING  N  N  33  
85T  "O3'"  H4     SING  N  N  34  
85T  "C4'"  H5     SING  N  N  35  
85T  "C5'"  H7     SING  N  N  36  
85T  "C5'"  H8     SING  N  N  37  
85T  O1B    H9     SING  N  N  38  
85T  O2G    H10    SING  N  N  39  
85T  O3G    H11    SING  N  N  40  
85T  "C1'"  H13    SING  N  N  41  
85T  C6     H14    SING  N  N  42  
85T  C5     H15    SING  N  N  43  
85T  N4     H16    SING  N  N  44  
85T  N4     H17    SING  N  N  45  
85T  "C4'"  "O4'"  SING  N  N  46  
#   #
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
85T  SMILES            ACDLabs               12.01  "O=P(O)(O)OP(=O)(O)OP(=O)(O)OCC1OC(N2C=CC(N)=NC2=O)C(C#N)C1O"  
85T  InChI             InChI                 1.03   "InChI=1S/C10H15N4O13P3/c11-3-5-8(15)6(25-9(5)14-2-1-7(12)13-10(14)16)4-24-29(20,21)27-30(22,23)26-28(17,18)19/h1-2,5-6,8-9,15H,4H2,(H,20,21)(H,22,23)(H2,12,13,16)(H2,17,18,19)/t5-,6+,8-,9+/m0/s1"  
85T  InChIKey          InChI                 1.03   DZFZBFCEJVKCLY-JWIUVKOKSA-N  
85T  SMILES_CANONICAL  CACTVS                3.385  "NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@@H]2C#N"  
85T  SMILES            CACTVS                3.385  "NC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]2C#N"  
85T  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "C1=CN(C(=O)N=C1N)[C@H]2[C@H]([C@@H](C(O2)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)C#N"  
85T  SMILES            "OpenEye OEToolkits"  2.0.7  "C1=CN(C(=O)N=C1N)C2C(C(C(O2)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)C#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
85T  "SYSTEMATIC NAME"  ACDLabs               12.01  "4-amino-1-{2-cyano-2-deoxy-5-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-arabinofuranosyl}pyrimidin-2(1H)-one"  
85T  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "[[(3~{S},4~{S},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-4-cyano-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono 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
85T  "Create component"  2021-09-08  RCSB  
85T  "Initial release"   2021-10-27  RCSB  
##
