data_EWC
#

_chem_comp.id                                   EWC
_chem_comp.name                                 "[(2~{R},3~{S},5~{R})-5-[(5~{S})-7-azanyl-2,4,9-tris(oxidanylidene)-1,3,6,8-tetrazaspiro[4.4]non-7-en-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate"
_chem_comp.type                                 "DNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C10 H14 N5 O9 P"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-02-12
_chem_comp.pdbx_modified_date                   2021-06-04
_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                       379.220
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    EWC
_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       6LWD
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 PDBJ
#   #
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
EWC  P      P1   P  0  1  N  N  N  -3.839  18.853  -28.821  -4.905   0.883   0.038  P      EWC   1  
EWC  OP1    O1   O  0  1  N  N  N  -4.234  19.206  -27.410  -6.052  -0.105  -0.511  OP1    EWC   2  
EWC  OP2    O2   O  0  1  N  N  N  -4.559  19.660  -29.854  -4.957   0.927   1.516  OP2    EWC   3  
EWC  "O5'"  O3   O  0  1  N  N  N  -4.016  17.282  -29.019  -3.462   0.344  -0.433  "O5'"  EWC   4  
EWC  "C5'"  C1   C  0  1  N  N  N  -3.421  16.648  -30.146  -2.913  -0.898   0.013  "C5'"  EWC   5  
EWC  "C4'"  C2   C  0  1  N  N  R  -4.503  16.046  -30.985  -1.536  -1.103  -0.623  "C4'"  EWC   6  
EWC  "C3'"  C3   C  0  1  N  N  S  -4.817  14.610  -30.616  -0.976  -2.496  -0.255  "C3'"  EWC   7  
EWC  "C2'"  C4   C  0  1  N  N  N  -3.887  13.842  -31.520   0.538  -2.253  -0.064  "C2'"  EWC   8  
EWC  "C1'"  C5   C  0  1  N  N  R  -3.906  14.701  -32.776   0.713  -0.743  -0.338  "C1'"  EWC   9  
EWC  "O4'"  O4   O  0  1  N  N  N  -4.032  16.042  -32.318  -0.584  -0.166  -0.074  "O4'"  EWC  10  
EWC  N9     N1   N  0  1  N  N  N  -2.771  14.487  -33.732   1.718  -0.174   0.564  N9     EWC  11  
EWC  C8     C6   C  0  1  N  N  N  -2.788  13.993  -34.964   1.664  -0.127   1.911  C8     EWC  12  
EWC  O23    O5   O  0  1  N  N  N  -3.906  13.608  -35.444   0.738  -0.564   2.566  O23    EWC  13  
EWC  N7     N2   N  0  1  N  N  N  -1.616  13.900  -35.632   2.746   0.455   2.444  N7     EWC  14  
EWC  C5     C7   C  0  1  N  N  N  -0.733  14.404  -34.767   3.620   0.848   1.491  C5     EWC  15  
EWC  C4     C8   C  0  1  N  N  R  -1.346  14.854  -33.486   2.984   0.452   0.186  C4     EWC  16  
EWC  C6     C9   C  0  1  N  N  N  -1.076  16.318  -33.273   3.864  -0.485  -0.599  C6     EWC  17  
EWC  O6     O6   O  0  1  N  N  N  -1.494  17.250  -34.089   4.282  -1.570  -0.246  O6     EWC  18  
EWC  N1     N3   N  0  1  N  N  N  -0.354  16.543  -32.137   4.086   0.128  -1.763  N1     EWC  19  
EWC  C2     C10  C  0  1  N  N  N  -0.159  15.286  -31.633   3.488   1.300  -1.837  C2     EWC  20  
EWC  N2     N4   N  0  1  N  N  N   0.520  15.043  -30.481   3.561   2.121  -2.921  N2     EWC  21  
EWC  N3     N5   N  0  1  N  N  N  -0.690  14.267  -32.333   2.789   1.597  -0.703  N3     EWC  22  
EWC  O24    O7   O  0  1  N  N  N   0.520  14.510  -35.017   4.686   1.402   1.653  O24    EWC  23  
EWC  "O3'"  O8   O  0  1  N  N  N  -6.121  14.269  -31.044  -1.207  -3.424  -1.316  "O3'"  EWC  24  
EWC  O1     O9   O  0  1  N  Y  N  -2.260  19.080  -29.044  -5.143   2.362  -0.552  O1     EWC  25  
EWC  H1     H1   H  0  1  N  N  N  -4.887  19.896  -27.427  -6.077  -0.182  -1.474  H1     EWC  26  
EWC  H2     H2   H  0  1  N  N  N  -2.734  15.859  -29.807  -2.813  -0.883   1.098  H2     EWC  27  
EWC  H3     H3   H  0  1  N  N  N  -2.864  17.390  -30.737  -3.573  -1.714  -0.280  H3     EWC  28  
EWC  H4     H4   H  0  1  N  N  N  -5.417  16.652  -30.897  -1.599  -0.993  -1.705  H4     EWC  29  
EWC  H5     H5   H  0  1  N  N  N  -4.630  14.404  -29.552  -1.426  -2.855   0.671  H5     EWC  30  
EWC  H6     H6   H  0  1  N  N  N  -4.267  12.829  -31.720   0.837  -2.493   0.957  H6     EWC  31  
EWC  H7     H7   H  0  1  N  N  N  -2.875  13.777  -31.093   1.112  -2.843  -0.778  H7     EWC  32  
EWC  H8     H8   H  0  1  N  N  N  -4.829  14.444  -33.317   0.998  -0.577  -1.377  H8     EWC  33  
EWC  H9     H9   H  0  1  N  N  N  -1.451  13.541  -36.551   2.885   0.579   3.396  H9     EWC  34  
EWC  H11    H11  H  0  1  N  N  N   0.905  15.803  -29.958   4.076   1.854  -3.698  H11    EWC  35  
EWC  H12    H12  H  0  1  N  N  N   0.634  14.104  -30.156   3.097   2.974  -2.916  H12    EWC  36  
EWC  H13    H13  H  0  1  N  N  N  -6.760  14.725  -30.509  -0.876  -4.315  -1.138  H13    EWC  37  
EWC  H14    H14  H  0  1  N  N  N  -2.125  19.671  -29.775  -5.994   2.750  -0.308  H14    EWC  38  
EWC  H10    H10  H  0  1  N  N  N  -0.642  13.295  -32.103   2.272   2.398  -0.525  H10    EWC  39  
#   #
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
EWC  N7     C8     SING  N  N   1  
EWC  N7     C5     SING  N  N   2  
EWC  O23    C8     DOUB  N  N   3  
EWC  O24    C5     DOUB  N  N   4  
EWC  C8     N9     SING  N  N   5  
EWC  C5     C4     SING  N  N   6  
EWC  O6     C6     DOUB  N  N   7  
EWC  N9     C4     SING  N  N   8  
EWC  N9     "C1'"  SING  N  N   9  
EWC  C4     C6     SING  N  N  10  
EWC  C4     N3     SING  N  N  11  
EWC  C6     N1     SING  N  N  12  
EWC  "C1'"  "O4'"  SING  N  N  13  
EWC  "C1'"  "C2'"  SING  N  N  14  
EWC  N3     C2     SING  N  N  15  
EWC  "O4'"  "C4'"  SING  N  N  16  
EWC  N1     C2     DOUB  N  N  17  
EWC  C2     N2     SING  N  N  18  
EWC  "C2'"  "C3'"  SING  N  N  19  
EWC  "O3'"  "C3'"  SING  N  N  20  
EWC  "C4'"  "C3'"  SING  N  N  21  
EWC  "C4'"  "C5'"  SING  N  N  22  
EWC  "C5'"  "O5'"  SING  N  N  23  
EWC  OP2    P      DOUB  N  N  24  
EWC  "O5'"  P      SING  N  N  25  
EWC  P      OP1    SING  N  N  26  
EWC  P      O1     SING  N  N  27  
EWC  OP1    H1     SING  N  N  28  
EWC  "C5'"  H2     SING  N  N  29  
EWC  "C5'"  H3     SING  N  N  30  
EWC  "C4'"  H4     SING  N  N  31  
EWC  "C3'"  H5     SING  N  N  32  
EWC  "C2'"  H6     SING  N  N  33  
EWC  "C2'"  H7     SING  N  N  34  
EWC  "C1'"  H8     SING  N  N  35  
EWC  N7     H9     SING  N  N  36  
EWC  N2     H11    SING  N  N  37  
EWC  N2     H12    SING  N  N  38  
EWC  "O3'"  H13    SING  N  N  39  
EWC  O1     H14    SING  N  N  40  
EWC  N3     H10    SING  N  N  41  
#   #
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
EWC  InChI             InChI                 1.03   "InChI=1S/C10H14N5O9P/c11-8-12-6(17)10(14-8)7(18)13-9(19)15(10)5-1-3(16)4(24-5)2-23-25(20,21)22/h3-5,16H,1-2H2,(H,13,18,19)(H2,20,21,22)(H3,11,12,14,17)/t3-,4+,5+,10+/m0/s1"  
EWC  InChIKey          InChI                 1.03   YZGJDNWNYOGONM-XPCBYELVSA-N  
EWC  SMILES_CANONICAL  CACTVS                3.385  "NC1=NC(=O)[C@@]2(N1)N([C@H]3C[C@H](O)[C@@H](CO[P](O)(O)=O)O3)C(=O)NC2=O"  
EWC  SMILES            CACTVS                3.385  "NC1=NC(=O)[C]2(N1)N([CH]3C[CH](O)[CH](CO[P](O)(O)=O)O3)C(=O)NC2=O"  
EWC  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "C1[C@@H]([C@H](O[C@H]1N2C(=O)NC(=O)[C@@]23C(=O)N=C(N3)N)COP(=O)(O)O)O"  
EWC  SMILES            "OpenEye OEToolkits"  2.0.7  "C1C(C(OC1N2C(=O)NC(=O)C23C(=O)N=C(N3)N)COP(=O)(O)O)O"  
#
_pdbx_chem_comp_identifier.comp_id          EWC
_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},5~{R})-5-[(5~{S})-7-azanyl-2,4,9-tris(oxidanylidene)-1,3,6,8-tetrazaspiro[4.4]non-7-en-1-yl]-3-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
EWC  "Create component"     2020-02-12  PDBJ  
EWC  "Modify linking type"  2020-02-12  PDBJ  
EWC  "Initial release"      2021-06-09  RCSB  
##
