data_O2Z
#

_chem_comp.id                                   O2Z
_chem_comp.name                                 "[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-diazanyl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxyphosphinic acid"
_chem_comp.type                                 "RNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C10 H16 N7 O7 P"
_chem_comp.mon_nstd_parent_comp_id              A
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-01-21
_chem_comp.pdbx_modified_date                   2020-02-14
_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                       377.251
_chem_comp.one_letter_code                      A
_chem_comp.three_letter_code                    O2Z
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  Y
_chem_comp.pdbx_ideal_coordinates_details       Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       6XUR
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 PDBE
#   #
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
O2Z  P       P1   P  0  1  N  N  N  -14.493  -5.007   7.246   5.259   1.116   0.179  P       O2Z   1  
O2Z  OP1     O1   O  0  1  N  N  N  -14.209  -5.543   5.919   6.496   0.112  -0.054  OP1     O2Z   2  
O2Z  OP2     O2   O  0  1  N  N  N  -13.590  -4.997   8.379   5.031   1.912  -1.048  OP2     O2Z   3  
O2Z  "O5'"   O3   O  0  1  N  N  N  -15.269  -3.638   7.206   3.936   0.266   0.521  "O5'"   O2Z   4  
O2Z  "C5'"   C1   C  0  1  N  N  N  -16.288  -3.410   6.260   3.320  -0.625  -0.411  "C5'"   O2Z   5  
O2Z  "C4'"   C2   C  0  1  N  N  R  -16.804  -2.007   6.387   2.090  -1.267   0.233  "C4'"   O2Z   6  
O2Z  "O4'"   O4   O  0  1  N  N  N  -17.374  -1.788   7.695   1.085  -0.267   0.471  "O4'"   O2Z   7  
O2Z  "C3'"   C3   C  0  1  N  N  S  -15.783  -0.895   6.245   1.481  -2.310  -0.724  "C3'"   O2Z   8  
O2Z  "O3'"   O5   O  0  1  N  N  N  -15.446  -0.732   4.885   1.482  -3.605  -0.120  "O3'"   O2Z   9  
O2Z  "C2'"   C4   C  0  1  N  N  R  -16.528   0.269   6.875   0.031  -1.817  -0.948  "C2'"   O2Z  10  
O2Z  "C1'"   C5   C  0  1  N  N  R  -17.209  -0.434   8.053  -0.197  -0.905   0.283  "C1'"   O2Z  11  
O2Z  N9      N1   N  0  1  Y  N  N  -16.390  -0.389   9.272  -1.232   0.092   0.003  N9      O2Z  12  
O2Z  C8      C6   C  0  1  Y  N  N  -15.707  -1.501   9.818  -1.034   1.339  -0.515  C8      O2Z  13  
O2Z  N7      N2   N  0  1  Y  N  N  -15.090  -1.043  10.962  -2.173   1.957  -0.634  N7      O2Z  14  
O2Z  C5      C7   C  0  1  Y  N  N  -15.502   0.312  11.003  -3.172   1.149  -0.202  C5      O2Z  15  
O2Z  C6      C8   C  0  1  Y  N  N  -15.149   1.176  12.043  -4.568   1.276  -0.097  C6      O2Z  16  
O2Z  N6      N3   N  0  1  N  N  N  -14.376   0.936  13.202  -5.202   2.441  -0.491  N6      O2Z  17  
O2Z  N1      N4   N  0  1  Y  N  N  -15.609   2.501  11.942  -5.265   0.254   0.386  N1      O2Z  18  
O2Z  C2      C9   C  0  1  Y  N  N  -16.410   2.810  10.810  -4.664  -0.867   0.766  C2      O2Z  19  
O2Z  N3      N5   N  0  1  Y  N  N  -16.690   1.822   9.941  -3.353  -1.029   0.684  N3      O2Z  20  
O2Z  C4      C10  C  0  1  Y  N  N  -16.240   0.696  10.099  -2.581  -0.058   0.207  C4      O2Z  21  
O2Z  "O2'"   O6   O  0  1  N  N  N  -17.534   0.716   5.994  -0.886  -2.914  -0.947  "O2'"   O2Z  22  
O2Z  N26     N6   N  0  1  N  N  N  -16.871   4.138  10.691  -5.436  -1.903   1.264  N26     O2Z  23  
O2Z  N25     N7   N  0  1  N  N  N  -13.838  -0.349  13.406  -6.560   2.549  -0.383  N25     O2Z  24  
O2Z  H2      H2   H  0  1  N  N  N  -13.326  -5.894   5.901   6.703  -0.442   0.711  H2      O2Z  25  
O2Z  "H5'1"  H3   H  0  0  N  N  N  -17.112  -4.118   6.435   3.018  -0.070  -1.299  "H5'1"  O2Z  26  
O2Z  "H5'2"  H4   H  0  0  N  N  N  -15.885  -3.559   5.248   4.030  -1.403  -0.693  "H5'2"  O2Z  27  
O2Z  "H4'"   H5   H  0  1  N  N  N  -17.583  -1.855   5.626   2.370  -1.743   1.173  "H4'"   O2Z  28  
O2Z  "H3'"   H6   H  0  1  N  N  N  -14.894  -1.132   6.848   2.028  -2.327  -1.667  "H3'"   O2Z  29  
O2Z  H3      H7   H  0  1  N  N  N  -14.806  -0.035   4.798   1.110  -4.300  -0.679  H3      O2Z  30  
O2Z  "H2'"   H8   H  0  1  N  N  N  -15.845   1.063   7.211  -0.048  -1.248  -1.874  "H2'"   O2Z  31  
O2Z  H4      H9   H  0  1  N  N  N  -18.183   0.041   8.240  -0.461  -1.499   1.158  H4      O2Z  32  
O2Z  H5      H10  H  0  1  N  N  N  -15.676  -2.504   9.420  -0.073   1.752  -0.786  H5      O2Z  33  
O2Z  H6      H11  H  0  1  N  N  N  -13.608   1.576  13.180  -4.683   3.181  -0.843  H6      O2Z  34  
O2Z  H7      H12  H  0  1  N  N  N  -18.000   1.444   6.388  -0.726  -3.561  -1.647  H7      O2Z  35  
O2Z  H8      H13  H  0  1  N  N  N  -17.432   4.224   9.867  -6.399  -1.803   1.331  H8      O2Z  36  
O2Z  H9      H14  H  0  1  N  N  N  -17.419   4.374  11.493  -5.015  -2.730   1.546  H9      O2Z  37  
O2Z  H10     H15  H  0  1  N  N  N  -13.320  -0.362  14.262  -6.878   3.451  -0.706  H10     O2Z  38  
O2Z  H11     H16  H  0  1  N  N  N  -14.580  -1.017  13.455  -7.023   1.803  -0.880  H11     O2Z  39  
O2Z  OP3     OP3  O  0  1  N  Y  N        ?       ?       ?   5.594   2.105   1.405  OP3     O2Z  40  
O2Z  H1      H1   H  0  1  N  N  N        ?       ?       ?   6.382   2.649   1.268  H1      O2Z  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
O2Z  "O3'"  "C3'"   SING  N  N   1  
O2Z  OP1    P       SING  N  N   2  
O2Z  "O2'"  "C2'"   SING  N  N   3  
O2Z  "C3'"  "C4'"   SING  N  N   4  
O2Z  "C3'"  "C2'"   SING  N  N   5  
O2Z  "C5'"  "C4'"   SING  N  N   6  
O2Z  "C5'"  "O5'"   SING  N  N   7  
O2Z  "C4'"  "O4'"   SING  N  N   8  
O2Z  "C2'"  "C1'"   SING  N  N   9  
O2Z  "O5'"  P       SING  N  N  10  
O2Z  P      OP2     DOUB  N  N  11  
O2Z  "O4'"  "C1'"   SING  N  N  12  
O2Z  "C1'"  N9      SING  N  N  13  
O2Z  N9     C8      SING  Y  N  14  
O2Z  N9     C4      SING  Y  N  15  
O2Z  C8     N7      DOUB  Y  N  16  
O2Z  N3     C4      DOUB  Y  N  17  
O2Z  N3     C2      SING  Y  N  18  
O2Z  C4     C5      SING  Y  N  19  
O2Z  N26    C2      SING  N  N  20  
O2Z  C2     N1      DOUB  Y  N  21  
O2Z  N7     C5      SING  Y  N  22  
O2Z  C5     C6      DOUB  Y  N  23  
O2Z  N1     C6      SING  Y  N  24  
O2Z  C6     N6      SING  N  N  25  
O2Z  N6     N25     SING  N  N  26  
O2Z  OP1    H2      SING  N  N  27  
O2Z  "C5'"  "H5'1"  SING  N  N  28  
O2Z  "C5'"  "H5'2"  SING  N  N  29  
O2Z  "C4'"  "H4'"   SING  N  N  30  
O2Z  "C3'"  "H3'"   SING  N  N  31  
O2Z  "O3'"  H3      SING  N  N  32  
O2Z  "C2'"  "H2'"   SING  N  N  33  
O2Z  "C1'"  H4      SING  N  N  34  
O2Z  C8     H5      SING  N  N  35  
O2Z  N6     H6      SING  N  N  36  
O2Z  "O2'"  H7      SING  N  N  37  
O2Z  N26    H8      SING  N  N  38  
O2Z  N26    H9      SING  N  N  39  
O2Z  N25    H10     SING  N  N  40  
O2Z  N25    H11     SING  N  N  41  
O2Z  P      OP3     SING  N  N  42  
O2Z  OP3    H1      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
O2Z  InChI             InChI                 1.03   "InChI=1S/C10H16N7O7P/c11-10-14-7(16-12)4-8(15-10)17(2-13-4)9-6(19)5(18)3(24-9)1-23-25(20,21)22/h2-3,5-6,9,18-19H,1,12H2,(H2,20,21,22)(H3,11,14,15,16)/t3-,5-,6-,9-/m1/s1"  
O2Z  InChIKey          InChI                 1.03   QHLBVSKMFFHOCN-UUOKFMHZSA-N  
O2Z  SMILES_CANONICAL  CACTVS                3.385  "NNc1nc(N)nc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]3O"  
O2Z  SMILES            CACTVS                3.385  "NNc1nc(N)nc2n(cnc12)[CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3O"  
O2Z  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1nc2c(nc(nc2n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)O)N)NN"  
O2Z  SMILES            "OpenEye OEToolkits"  2.0.7  "c1nc2c(nc(nc2n1C3C(C(C(O3)COP(=O)(O)O)O)O)N)NN"  
#
_pdbx_chem_comp_identifier.comp_id          O2Z
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  2.0.7
_pdbx_chem_comp_identifier.identifier       "[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-diazanyl-purin-9-yl)-3,4-bis(oxidanyl)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
O2Z  "Create component"  2020-01-21  PDBE  
O2Z  "Initial release"   2020-02-19  RCSB  
##
