data_CZC
#

_chem_comp.id                                   CZC
_chem_comp.name                                 "[(2~{R},3~{S},4~{R},5~{R})-5-[2,6-bis(oxidanylidene)-3~{H}-purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphono hydrogen phosphate"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C10 H14 N4 O12 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "xanthosine diphosphate"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2019-05-24
_chem_comp.pdbx_modified_date                   2022-03-25
_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                       444.185
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    CZC
_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       6K4A
_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
CZC  C1   C2   C  0  1  N  N  N  44.571  58.375  -1.709   6.143  -0.530   1.221  C1   CZC   1  
CZC  C2   C4   C  0  1  Y  N  N  43.542  60.348  -2.663   4.060  -0.512   0.100  C2   CZC   2  
CZC  C3   C5   C  0  1  Y  N  N  42.525  60.235  -1.802   4.482  -1.567  -0.699  C3   CZC   3  
CZC  C4   C1*  C  0  1  N  N  R  44.095  62.023  -4.537   1.940   0.839   0.259  C4   CZC   4  
CZC  C5   C2*  C  0  1  N  N  R  43.537  61.678  -5.900   2.187   2.178  -0.472  C5   CZC   5  
CZC  C6   C3*  C  0  1  N  N  S  44.320  62.684  -6.683   0.786   2.824  -0.555  C6   CZC   6  
CZC  C7   C4*  C  0  1  N  N  R  43.888  63.909  -5.896  -0.142   1.800   0.135  C7   CZC   7  
CZC  C8   C5*  C  0  1  N  N  N  42.415  64.217  -6.188  -1.492   1.738  -0.581  C8   CZC   8  
CZC  C9   C6   C  0  1  N  N  N  42.473  59.249  -0.903   5.826  -2.107  -0.484  C9   CZC   9  
CZC  C10  C8   C  0  1  Y  N  N  42.161  61.962  -3.039   2.468  -1.066  -1.310  C10  CZC  10  
CZC  N1   N1   N  0  1  N  N  N  43.492  58.290  -0.828   6.596  -1.553   0.478  N1   CZC  11  
CZC  N2   N3   N  0  1  N  N  N  44.596  59.420  -2.640   4.914  -0.011   1.056  N2   CZC  12  
CZC  N3   N7   N  0  1  Y  N  N  41.677  61.233  -2.039   3.467  -1.866  -1.545  N3   CZC  13  
CZC  N4   N9   N  0  1  Y  N  N  43.311  61.422  -3.423   2.796  -0.212  -0.298  N4   CZC  14  
CZC  O1   O2   O  0  1  N  N  N  45.479  57.546  -1.665   6.868  -0.061   2.077  O1   CZC  15  
CZC  O2   O2*  O  0  1  N  N  N  43.877  60.333  -6.277   3.078   3.002   0.282  O2   CZC  16  
CZC  O3   O3*  O  0  1  N  N  N  45.719  62.447  -6.493   0.767   4.069   0.145  O3   CZC  17  
CZC  O4   O4*  O  0  1  N  N  N  44.009  63.481  -4.506   0.549   0.537   0.015  O4   CZC  18  
CZC  O5   O5*  O  0  1  N  N  N  42.026  65.412  -5.500  -2.374   0.874   0.140  O5   CZC  19  
CZC  O6   O6   O  0  1  N  N  N  41.524  59.171  -0.125   6.241  -3.031  -1.159  O6   CZC  20  
CZC  O7   OAS  O  0  1  N  N  N  40.204  65.614  -7.343  -4.537  -0.535   0.638  O7   CZC  21  
CZC  O8   OAT  O  0  1  N  N  N  39.513  65.742  -4.883  -4.750   1.930  -0.249  O8   CZC  22  
CZC  O9   OAV  O  0  1  N  N  N  40.855  67.669  -5.958  -3.880   0.074  -1.722  O9   CZC  23  
CZC  O10  OAX  O  0  1  N  N  N  42.096  67.029  -8.431  -5.692  -2.671   1.647  O10  CZC  24  
CZC  O11  OAY  O  0  1  N  N  N  39.620  67.579  -8.926  -7.159  -0.719   0.672  O11  CZC  25  
CZC  O12  OAZ  O  0  1  N  N  N  40.691  65.437  -9.874  -5.758  -2.187  -0.829  O12  CZC  26  
CZC  P1   PBD  P  0  1  N  N  N  40.679  66.196  -5.913  -3.885   0.575  -0.329  P1   CZC  27  
CZC  P2   PBE  P  0  1  N  N  N  40.650  66.348  -8.703  -5.786  -1.542   0.503  P2   CZC  28  
CZC  H1   H1   H  0  1  N  N  N  45.145  61.700  -4.475   2.122   0.949   1.328  H1   CZC  29  
CZC  H2   H2   H  0  1  N  N  N  42.456  61.873  -5.953   2.586   1.999  -1.470  H2   CZC  30  
CZC  H3   H3   H  0  1  N  N  N  44.016  62.734  -7.739   0.493   2.967  -1.595  H3   CZC  31  
CZC  H4   H4   H  0  1  N  N  N  44.527  64.776  -6.122  -0.279   2.059   1.185  H4   CZC  32  
CZC  H5   H5   H  0  1  N  N  N  42.278  64.357  -7.270  -1.924   2.738  -0.630  H5   CZC  33  
CZC  H6   H6   H  0  1  N  N  N  41.791  63.378  -5.845  -1.352   1.353  -1.591  H6   CZC  34  
CZC  H7   H7   H  0  1  N  N  N  41.699  62.841  -3.465   1.525  -1.076  -1.836  H7   CZC  35  
CZC  H8   H8   H  0  1  N  N  N  43.447  57.554  -0.152   7.489  -1.899   0.633  H8   CZC  36  
CZC  H9   H9   H  0  1  N  N  N  45.357  59.505  -3.283   4.625   0.726   1.617  H9   CZC  37  
CZC  H10  H10  H  0  1  N  N  N  43.364  59.720  -5.763   3.268   3.856  -0.131  H10  CZC  38  
CZC  H11  H11  H  0  1  N  N  N  46.219  63.085  -6.989   1.377   4.730  -0.210  H11  CZC  39  
CZC  H12  H12  H  0  1  N  N  N  39.133  66.511  -4.475  -4.797   2.316   0.636  H12  CZC  40  
CZC  H13  H13  H  0  1  N  N  N  42.719  66.719  -9.078  -6.414  -3.313   1.626  H13  CZC  41  
CZC  H14  H14  H  0  1  N  N  N  39.215  67.502  -9.782  -7.246  -0.270   1.524  H14  CZC  42  
#   #
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
CZC  O12  P2   DOUB  N  N   1  
CZC  O11  P2   SING  N  N   2  
CZC  P2   O10  SING  N  N   3  
CZC  P2   O7   SING  N  N   4  
CZC  O7   P1   SING  N  N   5  
CZC  C6   O3   SING  N  N   6  
CZC  C6   C5   SING  N  N   7  
CZC  C6   C7   SING  N  N   8  
CZC  O2   C5   SING  N  N   9  
CZC  C8   C7   SING  N  N  10  
CZC  C8   O5   SING  N  N  11  
CZC  O9   P1   DOUB  N  N  12  
CZC  P1   O5   SING  N  N  13  
CZC  P1   O8   SING  N  N  14  
CZC  C5   C4   SING  N  N  15  
CZC  C7   O4   SING  N  N  16  
CZC  C4   O4   SING  N  N  17  
CZC  C4   N4   SING  N  N  18  
CZC  N4   C10  SING  Y  N  19  
CZC  N4   C2   SING  Y  N  20  
CZC  C10  N3   DOUB  Y  N  21  
CZC  C2   N2   SING  N  N  22  
CZC  C2   C3   DOUB  Y  N  23  
CZC  N2   C1   SING  N  N  24  
CZC  N3   C3   SING  Y  N  25  
CZC  C3   C9   SING  N  N  26  
CZC  C1   O1   DOUB  N  N  27  
CZC  C1   N1   SING  N  N  28  
CZC  C9   N1   SING  N  N  29  
CZC  C9   O6   DOUB  N  N  30  
CZC  C4   H1   SING  N  N  31  
CZC  C5   H2   SING  N  N  32  
CZC  C6   H3   SING  N  N  33  
CZC  C7   H4   SING  N  N  34  
CZC  C8   H5   SING  N  N  35  
CZC  C8   H6   SING  N  N  36  
CZC  C10  H7   SING  N  N  37  
CZC  N1   H8   SING  N  N  38  
CZC  N2   H9   SING  N  N  39  
CZC  O2   H10  SING  N  N  40  
CZC  O3   H11  SING  N  N  41  
CZC  O8   H12  SING  N  N  42  
CZC  O10  H13  SING  N  N  43  
CZC  O11  H14  SING  N  N  44  
#   #
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
CZC  InChI             InChI                 1.03   "InChI=1S/C10H14N4O12P2/c15-5-3(1-24-28(22,23)26-27(19,20)21)25-9(6(5)16)14-2-11-4-7(14)12-10(18)13-8(4)17/h2-3,5-6,9,15-16H,1H2,(H,22,23)(H2,19,20,21)(H2,12,13,17,18)/t3-,5-,6-,9-/m1/s1"  
CZC  InChIKey          InChI                 1.03   YMOPVQQBWLGDOD-UUOKFMHZSA-N  
CZC  SMILES_CANONICAL  CACTVS                3.385  "O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(=O)O[P](O)(O)=O)n2cnc3C(=O)NC(=O)Nc23"  
CZC  SMILES            CACTVS                3.385  "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(=O)O[P](O)(O)=O)n2cnc3C(=O)NC(=O)Nc23"  
CZC  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)O)O)O)NC(=O)NC2=O"  
CZC  SMILES            "OpenEye OEToolkits"  2.0.7  "c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)NC(=O)NC2=O"  
#
_pdbx_chem_comp_identifier.comp_id          CZC
_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-[2,6-bis(oxidanylidene)-3~{H}-purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphono hydrogen phosphate"
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     CZC
_pdbx_chem_comp_synonyms.name        "xanthosine diphosphate"
_pdbx_chem_comp_synonyms.provenance  AUTHOR
_pdbx_chem_comp_synonyms.type        ?
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
CZC  "Create component"  2019-05-24  PDBJ  
CZC  "Modify synonyms"   2022-03-23  PDBJ  
CZC  "Initial release"   2022-03-30  RCSB  
##
