data_7D3
#

_chem_comp.id                                   7D3
_chem_comp.name                                 "[(2S,3R,4R)-4-(6-amino-9H-purin-9-yl)-3-(hydroxymethyl)oxetan-2-yl]methyl trihydrogen diphosphate"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C10 H15 N5 O9 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "oxetanocin A diphosphate"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2016-10-07
_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                       411.202
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    7D3
_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       5TK6
_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
7D3  C01  C1   C  0  1  Y  N  N  -8.271  -16.932  -15.636   6.685   1.121   0.462  C01  7D3   1  
7D3  N02  N1   N  0  1  Y  N  N  -7.459  -17.509  -16.525   5.386   1.076   0.675  N02  7D3   2  
7D3  C03  C2   C  0  1  Y  N  N  -6.553  -18.482  -16.141   4.697  -0.032   0.423  C03  7D3   3  
7D3  C04  C3   C  0  1  Y  N  N  -6.496  -18.853  -14.789   5.373  -1.158  -0.076  C04  7D3   4  
7D3  C05  C4   C  0  1  Y  N  N  -7.379  -18.203  -13.877   6.759  -1.061  -0.287  C05  7D3   5  
7D3  N06  N2   N  0  1  Y  N  N  -8.245  -17.256  -14.341   7.363   0.089  -0.005  N06  7D3   6  
7D3  N07  N3   N  0  1  N  N  N  -7.363  -18.542  -12.522   7.478  -2.137  -0.776  N07  7D3   7  
7D3  N08  N4   N  0  1  Y  N  N  -5.532  -19.816  -14.684   4.450  -2.136  -0.244  N08  7D3   8  
7D3  C09  C5   C  0  1  Y  N  N  -5.016  -20.030  -15.904   3.279  -1.692   0.112  C09  7D3   9  
7D3  N10  N5   N  0  1  Y  N  N  -5.597  -19.229  -16.807   3.379  -0.398   0.531  N10  7D3  10  
7D3  C11  C6   C  0  1  N  N  R  -5.349  -19.205  -18.188   2.281   0.445   1.009  C11  7D3  11  
7D3  C12  C7   C  0  1  N  N  R  -3.975  -19.044  -18.722   1.625   1.298  -0.093  C12  7D3  12  
7D3  C13  C8   C  0  1  N  N  S  -3.974  -20.386  -19.112   0.284   0.888   0.545  C13  7D3  13  
7D3  O14  O1   O  0  1  N  N  N  -5.382  -20.510  -18.709   1.013  -0.236   1.085  O14  7D3  14  
7D3  C15  C9   C  0  1  N  N  N  -3.019  -21.223  -18.300  -0.792   0.501  -0.471  C15  7D3  15  
7D3  O16  O2   O  0  1  N  N  N  -3.676  -22.360  -17.870  -2.023   0.252   0.211  O16  7D3  16  
7D3  P17  P1   P  0  1  N  N  N  -2.996  -23.377  -16.866  -3.375  -0.181  -0.550  P17  7D3  17  
7D3  O18  O3   O  0  1  N  N  N  -2.541  -22.781  -15.589  -3.171  -1.628  -1.225  O18  7D3  18  
7D3  O19  O4   O  0  1  N  N  N  -1.814  -23.978  -17.551  -3.690   0.814  -1.599  O19  7D3  19  
7D3  O20  O5   O  0  1  N  N  N  -4.082  -24.526  -16.489  -4.588  -0.248   0.507  O20  7D3  20  
7D3  P21  P2   P  0  1  N  N  N  -4.246  -25.877  -17.335  -6.190  -0.308   0.368  P21  7D3  21  
7D3  O22  O6   O  0  1  N  N  N  -4.628  -25.487  -18.748  -6.625   0.593  -0.723  O22  7D3  22  
7D3  O23  O7   O  0  1  N  N  N  -2.914  -26.651  -17.372  -6.643  -1.816   0.032  O23  7D3  23  
7D3  O24  O8   O  0  1  N  N  N  -5.396  -26.794  -16.627  -6.867   0.160   1.752  O24  7D3  24  
7D3  C29  C10  C  0  1  N  N  N  -3.875  -18.051  -19.942   1.933   2.793   0.016  C29  7D3  25  
7D3  O30  O9   O  0  1  N  N  N  -4.313  -18.585  -21.166   1.380   3.477  -1.110  O30  7D3  26  
7D3  H1   H1   H  0  1  N  N  N  -8.969  -16.181  -15.974   7.214   2.038   0.674  H1   7D3  27  
7D3  H2   H2   H  0  1  N  N  N  -8.046  -17.999  -12.034   7.025  -2.971  -0.978  H2   7D3  28  
7D3  H3   H3   H  0  1  N  N  N  -7.575  -19.514  -12.419   8.434  -2.058  -0.917  H3   7D3  29  
7D3  H4   H4   H  0  1  N  N  N  -4.240  -20.748  -16.127   2.364  -2.264   0.080  H4   7D3  30  
7D3  H5   H5   H  0  1  N  N  N  -6.048  -18.539  -18.716   2.535   1.006   1.908  H5   7D3  31  
7D3  H6   H6   H  0  1  N  N  N  -3.239  -18.798  -17.942   1.771   0.905  -1.099  H6   7D3  32  
7D3  H7   H7   H  0  1  N  N  N  -3.831  -20.533  -20.193  -0.074   1.584   1.304  H7   7D3  33  
7D3  H8   H8   H  0  1  N  N  N  -2.157  -21.507  -18.921  -0.929   1.314  -1.183  H8   7D3  34  
7D3  H9   H9   H  0  1  N  N  N  -2.670  -20.647  -17.430  -0.483  -0.399  -1.003  H9   7D3  35  
7D3  H10  H10  H  0  1  N  N  N  -1.605  -22.914  -15.493  -2.961  -2.330  -0.595  H10  7D3  36  
7D3  H11  H11  H  0  1  N  N  N  -2.613  -26.721  -18.270  -6.391  -2.462   0.706  H11  7D3  37  
7D3  H12  H12  H  0  1  N  N  N  -6.115  -26.925  -17.234  -7.834   0.148   1.741  H12  7D3  38  
7D3  H13  H13  H  0  1  N  N  N  -2.823  -17.751  -20.055   1.495   3.188   0.933  H13  7D3  39  
7D3  H14  H14  H  0  1  N  N  N  -4.487  -17.165  -19.715   3.013   2.940   0.036  H14  7D3  40  
7D3  H15  H15  H  0  1  N  N  N  -4.222  -17.930  -21.848   1.537   4.431  -1.106  H15  7D3  41  
#   #
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
7D3  O30  C29  SING  N  N   1  
7D3  C29  C12  SING  N  N   2  
7D3  C13  C12  SING  N  N   3  
7D3  C13  O14  SING  N  N   4  
7D3  C13  C15  SING  N  N   5  
7D3  O22  P21  DOUB  N  N   6  
7D3  C12  C11  SING  N  N   7  
7D3  O14  C11  SING  N  N   8  
7D3  C15  O16  SING  N  N   9  
7D3  C11  N10  SING  N  N  10  
7D3  O16  P17  SING  N  N  11  
7D3  O19  P17  DOUB  N  N  12  
7D3  O23  P21  SING  N  N  13  
7D3  P21  O24  SING  N  N  14  
7D3  P21  O20  SING  N  N  15  
7D3  P17  O20  SING  N  N  16  
7D3  P17  O18  SING  N  N  17  
7D3  N10  C03  SING  Y  N  18  
7D3  N10  C09  SING  Y  N  19  
7D3  N02  C03  DOUB  Y  N  20  
7D3  N02  C01  SING  Y  N  21  
7D3  C03  C04  SING  Y  N  22  
7D3  C09  N08  DOUB  Y  N  23  
7D3  C01  N06  DOUB  Y  N  24  
7D3  C04  N08  SING  Y  N  25  
7D3  C04  C05  DOUB  Y  N  26  
7D3  N06  C05  SING  Y  N  27  
7D3  C05  N07  SING  N  N  28  
7D3  C01  H1   SING  N  N  29  
7D3  N07  H2   SING  N  N  30  
7D3  N07  H3   SING  N  N  31  
7D3  C09  H4   SING  N  N  32  
7D3  C11  H5   SING  N  N  33  
7D3  C12  H6   SING  N  N  34  
7D3  C13  H7   SING  N  N  35  
7D3  C15  H8   SING  N  N  36  
7D3  C15  H9   SING  N  N  37  
7D3  O18  H10  SING  N  N  38  
7D3  O23  H11  SING  N  N  39  
7D3  O24  H12  SING  N  N  40  
7D3  C29  H13  SING  N  N  41  
7D3  C29  H14  SING  N  N  42  
7D3  O30  H15  SING  N  N  43  
#   #
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
7D3  SMILES            ACDLabs               12.01  "c1nc(c2c(n1)n(cn2)C3C(C(O3)COP(OP(O)(=O)O)(O)=O)CO)N"  
7D3  InChI             InChI                 1.03   "InChI=1S/C10H15N5O9P2/c11-8-7-9(13-3-12-8)15(4-14-7)10-5(1-16)6(23-10)2-22-26(20,21)24-25(17,18)19/h3-6,10,16H,1-2H2,(H,20,21)(H2,11,12,13)(H2,17,18,19)/t5-,6-,10-/m1/s1"  
7D3  InChIKey          InChI                 1.03   HJOFGDMHIXEUNX-OXOINMOOSA-N  
7D3  SMILES_CANONICAL  CACTVS                3.385  "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(O)=O)[C@H]3CO"  
7D3  SMILES            CACTVS                3.385  "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH]3CO"  
7D3  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)O)CO)N"  
7D3  SMILES            "OpenEye OEToolkits"  2.0.6  "c1nc(c2c(n1)n(cn2)C3C(C(O3)COP(=O)(O)OP(=O)(O)O)CO)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
7D3  "SYSTEMATIC NAME"  ACDLabs               12.01  "[(2S,3R,4R)-4-(6-amino-9H-purin-9-yl)-3-(hydroxymethyl)oxetan-2-yl]methyl trihydrogen diphosphate"  
7D3  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.6  "[(2~{S},3~{R},4~{R})-4-(6-aminopurin-9-yl)-3-(hydroxymethyl)oxetan-2-yl]methyl 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
7D3  "Create component"  2016-10-07  RCSB  
7D3  "Initial release"   2016-11-23  RCSB  
7D3  "Modify synonyms"   2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     7D3
_pdbx_chem_comp_synonyms.name        "oxetanocin A diphosphate"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
