data_7D4
#

_chem_comp.id                                   7D4
_chem_comp.name                                 "[[(2~{S},3~{R},4~{R})-4-(6-aminopurin-9-yl)-3-(hydroxymethyl)oxetan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C10 H16 N5 O12 P3"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "oxetanocin A triphosphate"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2016-10-07
_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                       491.182
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    7D4
_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       5TK7
_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
7D4  C01  C1   C  0  1  Y  N  N  -8.414  -17.196  -15.687   8.019   1.245   0.741  C01  7D4   1  
7D4  N02  N1   N  0  1  Y  N  N  -7.588  -17.770  -16.548   6.705   1.217   0.821  N02  7D4   2  
7D4  C03  C2   C  0  1  Y  N  N  -6.651  -18.696  -16.118   6.041   0.079   0.645  C03  7D4   3  
7D4  C04  C3   C  0  1  Y  N  N  -6.591  -19.002  -14.749   6.760  -1.097   0.373  C04  7D4   4  
7D4  C05  C4   C  0  1  Y  N  N  -7.503  -18.345  -13.869   8.161  -1.015   0.298  C05  7D4   5  
7D4  N06  N2   N  0  1  Y  N  N  -8.393  -17.456  -14.382   8.738   0.167   0.488  N06  7D4   6  
7D4  N07  N3   N  0  1  N  N  N  -7.492  -18.617  -12.497   8.923  -2.140   0.033  N07  7D4   7  
7D4  N08  N4   N  0  1  Y  N  N  -5.590  -19.923  -14.595   5.856  -2.096   0.239  N08  7D4   8  
7D4  C09  C5   C  0  1  Y  N  N  -5.056  -20.173  -15.801   4.656  -1.620   0.408  C09  7D4   9  
7D4  N10  N5   N  0  1  Y  N  N  -5.669  -19.450  -16.742   4.718  -0.282   0.661  N10  7D4  10  
7D4  C11  C6   C  0  1  N  N  R  -5.374  -19.465  -18.112   3.579   0.607   0.906  C11  7D4  11  
7D4  C12  C7   C  0  1  N  N  R  -3.944  -19.475  -18.469   3.047   1.301  -0.362  C12  7D4  12  
7D4  C13  C8   C  0  1  N  N  S  -4.127  -20.645  -19.211   1.644   0.967   0.180  C13  7D4  13  
7D4  O14  O1   O  0  1  N  N  N  -5.489  -20.745  -18.677   2.306  -0.070   0.936  O14  7D4  14  
7D4  C15  C9   C  0  1  N  N  N  -3.242  -21.810  -18.810   0.678   0.437  -0.882  C15  7D4  15  
7D4  O16  O2   O  0  1  N  N  N  -3.410  -22.108  -17.465  -0.590   0.170  -0.281  O16  7D4  16  
7D4  P17  P1   P  0  1  N  N  N  -3.010  -23.525  -16.877  -1.849  -0.400  -1.107  P17  7D4  17  
7D4  O18  O3   O  0  1  N  N  N  -2.717  -23.401  -15.432  -1.514  -1.881  -1.642  O18  7D4  18  
7D4  O19  O4   O  0  1  N  N  N  -1.807  -24.063  -17.574  -2.128   0.488  -2.257  O19  7D4  19  
7D4  O20  O5   O  0  1  N  N  N  -4.270  -24.543  -17.056  -3.140  -0.456  -0.147  O20  7D4  20  
7D4  P21  P2   P  0  1  N  N  N  -4.303  -25.955  -17.832  -4.720  -0.622  -0.406  P21  7D4  21  
7D4  O22  O6   O  0  1  N  N  N  -3.005  -26.690  -17.592  -5.110   0.163  -1.599  O22  7D4  22  
7D4  O23  O7   O  0  1  N  N  N  -5.464  -26.795  -17.241  -5.064  -2.176  -0.651  O23  7D4  23  
7D4  O24  O8   O  0  1  N  N  N  -4.554  -25.681  -19.438  -5.534  -0.089   0.877  O24  7D4  24  
7D4  P25  P3   P  0  1  N  N  N  -3.669  -26.154  -20.631  -7.073   0.303   1.142  P25  7D4  25  
7D4  O26  O9   O  0  1  N  N  N  -4.190  -25.587  -21.988  -7.953  -0.730   0.553  O26  7D4  26  
7D4  O27  O10  O  0  1  N  N  N  -2.238  -25.662  -20.441  -7.338   0.394   2.727  O27  7D4  27  
7D4  O28  O11  O  0  1  N  N  N  -3.693  -27.712  -20.719  -7.389   1.728   0.462  O28  7D4  28  
7D4  C29  C10  C  0  1  N  N  N  -3.509  -18.284  -19.374   3.349   2.800  -0.418  C29  7D4  29  
7D4  O30  O12  O  0  1  N  N  N  -4.360  -18.150  -20.457   2.921   3.325  -1.676  O30  7D4  30  
7D4  H1   H1   H  0  1  N  N  N  -9.137  -16.485  -16.060   8.528   2.187   0.885  H1   7D4  31  
7D4  H2   H2   H  0  1  N  N  N  -8.199  -18.075  -12.044   8.490  -2.998  -0.104  H2   7D4  32  
7D4  H3   H3   H  0  1  N  N  N  -7.671  -19.590  -12.349   9.889  -2.071  -0.015  H3   7D4  33  
7D4  H4   H4   H  0  1  N  N  N  -4.245  -20.862  -15.985   3.747  -2.200   0.356  H4   7D4  34  
7D4  H5   H5   H  0  1  N  N  N  -5.927  -18.700  -18.676   3.739   1.283   1.745  H5   7D4  35  
7D4  H6   H6   H  0  1  N  N  N  -3.283  -19.588  -17.597   3.297   0.781  -1.287  H6   7D4  36  
7D4  H7   H7   H  0  1  N  N  N  -4.114  -20.482  -20.299   1.211   1.754   0.796  H7   7D4  37  
7D4  H8   H8   H  0  1  N  N  N  -3.509  -22.691  -19.412   0.558   1.183  -1.668  H8   7D4  38  
7D4  H9   H9   H  0  1  N  N  N  -2.190  -21.545  -18.993   1.078  -0.481  -1.311  H9   7D4  39  
7D4  H10  H10  H  0  1  N  N  N  -1.828  -23.690  -15.263  -1.320  -2.518  -0.941  H10  7D4  40  
7D4  H11  H11  H  0  1  N  N  N  -5.116  -27.590  -16.855  -4.834  -2.751   0.092  H11  7D4  41  
7D4  H12  H12  H  0  1  N  N  N  -1.986  -25.126  -21.184  -8.247   0.627   2.961  H12  7D4  42  
7D4  H13  H13  H  0  1  N  N  N  -4.017  -27.976  -21.572  -6.847   2.454   0.800  H13  7D4  43  
7D4  H14  H14  H  0  1  N  N  N  -2.487  -18.464  -19.739   2.819   3.308   0.387  H14  7D4  44  
7D4  H15  H15  H  0  1  N  N  N  -3.529  -17.356  -18.783   4.422   2.959  -0.304  H15  7D4  45  
7D4  H16  H16  H  0  1  N  N  N  -4.077  -17.419  -20.994   3.082   4.273  -1.782  H16  7D4  46  
#   #
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
7D4  O26  P25  DOUB  N  N   1  
7D4  O28  P25  SING  N  N   2  
7D4  P25  O27  SING  N  N   3  
7D4  P25  O24  SING  N  N   4  
7D4  O30  C29  SING  N  N   5  
7D4  O24  P21  SING  N  N   6  
7D4  C29  C12  SING  N  N   7  
7D4  C13  C15  SING  N  N   8  
7D4  C13  O14  SING  N  N   9  
7D4  C13  C12  SING  N  N  10  
7D4  C15  O16  SING  N  N  11  
7D4  O14  C11  SING  N  N  12  
7D4  C12  C11  SING  N  N  13  
7D4  C11  N10  SING  N  N  14  
7D4  P21  O22  DOUB  N  N  15  
7D4  P21  O23  SING  N  N  16  
7D4  P21  O20  SING  N  N  17  
7D4  O19  P17  DOUB  N  N  18  
7D4  O16  P17  SING  N  N  19  
7D4  O20  P17  SING  N  N  20  
7D4  P17  O18  SING  N  N  21  
7D4  N10  C03  SING  Y  N  22  
7D4  N10  C09  SING  Y  N  23  
7D4  N02  C03  DOUB  Y  N  24  
7D4  N02  C01  SING  Y  N  25  
7D4  C03  C04  SING  Y  N  26  
7D4  C09  N08  DOUB  Y  N  27  
7D4  C01  N06  DOUB  Y  N  28  
7D4  C04  N08  SING  Y  N  29  
7D4  C04  C05  DOUB  Y  N  30  
7D4  N06  C05  SING  Y  N  31  
7D4  C05  N07  SING  N  N  32  
7D4  C01  H1   SING  N  N  33  
7D4  N07  H2   SING  N  N  34  
7D4  N07  H3   SING  N  N  35  
7D4  C09  H4   SING  N  N  36  
7D4  C11  H5   SING  N  N  37  
7D4  C12  H6   SING  N  N  38  
7D4  C13  H7   SING  N  N  39  
7D4  C15  H8   SING  N  N  40  
7D4  C15  H9   SING  N  N  41  
7D4  O18  H10  SING  N  N  42  
7D4  O23  H11  SING  N  N  43  
7D4  O27  H12  SING  N  N  44  
7D4  O28  H13  SING  N  N  45  
7D4  C29  H14  SING  N  N  46  
7D4  C29  H15  SING  N  N  47  
7D4  O30  H16  SING  N  N  48  
#   #
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
7D4  InChI             InChI                 1.03   "InChI=1S/C10H16N5O12P3/c11-8-7-9(13-3-12-8)15(4-14-7)10-5(1-16)6(25-10)2-24-29(20,21)27-30(22,23)26-28(17,18)19/h3-6,10,16H,1-2H2,(H,20,21)(H,22,23)(H2,11,12,13)(H2,17,18,19)/t5-,6-,10-/m1/s1"  
7D4  InChIKey          InChI                 1.03   QPXUYEBFFPGHRP-OXOINMOOSA-N  
7D4  SMILES_CANONICAL  CACTVS                3.385  "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[C@H]3CO"  
7D4  SMILES            CACTVS                3.385  "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[CH]3CO"  
7D4  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)CO)N"  
7D4  SMILES            "OpenEye OEToolkits"  2.0.6  "c1nc(c2c(n1)n(cn2)C3C(C(O3)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)CO)N"  
#
_pdbx_chem_comp_identifier.comp_id          7D4
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  2.0.6
_pdbx_chem_comp_identifier.identifier       "[[(2~{S},3~{R},4~{R})-4-(6-aminopurin-9-yl)-3-(hydroxymethyl)oxetan-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
7D4  "Create component"  2016-10-07  RCSB  
7D4  "Initial release"   2016-11-16  RCSB  
7D4  "Modify synonyms"   2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     7D4
_pdbx_chem_comp_synonyms.name        "oxetanocin A triphosphate"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
