data_2GF
#

_chem_comp.id                                   2GF
_chem_comp.name                                 "[(2R,5R)-5-(4-amino-5-chloro-2-oxopyrimidin-1(2H)-yl)-3-oxotetrahydrofuran-2-yl]methyl dihydrogen phosphate"
_chem_comp.type                                 "DNA LINKING"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C9 H11 Cl N3 O7 P"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "5-CHLORO DEOXYCYTIDINE-5'-MONOPHOSPHATE"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2013-10-15
_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                       339.626
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    2GF
_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       4MGW
_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
2GF  P       P       P   0  1  N  N  N  -0.317  5.106  13.671   4.443  -1.129  -0.193  P       2GF   1  
2GF  OP1     O1P     O   0  1  N  N  N  -1.784  5.106  13.484   5.760  -0.209  -0.084  O1P     2GF   2  
2GF  OP2     O2P     O   0  1  N  N  N  -0.054  6.148  14.696   4.163  -1.748   1.121  O2P     2GF   3  
2GF  "O5'"   "O5'"   O   0  1  N  N  N   0.362  3.752  13.846   3.190  -0.221  -0.637  "O5'"   2GF   4  
2GF  "C5'"   "C5'"   C   0  1  N  N  N   0.048  2.785  12.952   2.658   0.824   0.180  "C5'"   2GF   5  
2GF  "C4'"   "C4'"   C   0  1  N  N  R   1.184  1.804  12.741   1.478   1.482  -0.538  "C4'"   2GF   6  
2GF  "O4'"   "O4'"   O   0  1  N  N  N   2.385  2.425  12.586   0.391   0.548  -0.644  "O4'"   2GF   7  
2GF  "C3'"   "C3'"   C   0  1  N  N  N   1.309  0.867  13.858   0.986   2.671   0.265  "C3'"   2GF   8  
2GF  "O3'"   "O3'"   O   0  1  N  N  N   0.392  0.116  14.135   1.614   3.649   0.593  "O3'"   2GF   9  
2GF  "C2'"   "C2'"   C   0  1  N  N  N   2.670  0.998  14.413  -0.475   2.360   0.567  "C2'"   2GF  10  
2GF  "C1'"   "C1'"   C   0  1  N  N  R   3.343  1.638  13.224  -0.825   1.319  -0.526  "C1'"   2GF  11  
2GF  N1      N1      N   0  1  N  N  N   4.364  2.562  13.563  -1.938   0.469  -0.094  N1      2GF  12  
2GF  C2      C2      C   0  1  N  N  N   5.675  2.408  13.112  -1.817  -0.276   1.020  C2      2GF  13  
2GF  O2      O2      O   0  1  N  N  N   5.968  1.314  12.339  -0.779  -0.236   1.659  O2      2GF  14  
2GF  N3      N3      N   0  1  N  N  N   6.710  3.339  13.438  -2.812  -1.057   1.436  N3      2GF  15  
2GF  C4      C4      C   0  1  N  N  N   6.385  4.406  14.213  -3.952  -1.120   0.760  C4      2GF  16  
2GF  N4      N4      N   0  1  N  N  N   7.374  5.381  14.552  -4.973  -1.931   1.200  N4      2GF  17  
2GF  C5      C5      C   0  1  N  N  N   5.043  4.568  14.676  -4.111  -0.352  -0.412  C5      2GF  18  
2GF  C6      C6      C   0  1  N  N  N   4.048  3.663  14.360  -3.092   0.442  -0.820  C6      2GF  19  
2GF  CL      CL      CL  0  0  N  N  N   4.661  5.931  15.686  -5.593  -0.417  -1.315  CL      2GF  20  
2GF  H1      H1      H   0  1  N  N  N  -2.176  5.757  14.054   6.003   0.229  -0.911  H1      2GF  21  
2GF  "H5'1"  "H5'1"  H   0  0  N  N  N  -0.193  3.259  11.989   2.320   0.408   1.129  "H5'1"  2GF  22  
2GF  "H5'2"  "H5'2"  H   0  0  N  N  N  -0.830  2.235  13.320   3.432   1.569   0.365  "H5'2"  2GF  23  
2GF  "H4'"   "H4'"   H   0  1  N  N  N   0.953  1.224  11.835   1.785   1.809  -1.531  "H4'"   2GF  24  
2GF  "H2'2"  "H2'2"  H   0  0  N  N  N   3.111  0.021  14.661  -0.582   1.929   1.562  "H2'2"  2GF  25  
2GF  "H2'"   "H2'"   H   0  1  N  N  N   2.694  1.647  15.301  -1.090   3.254   0.466  "H2'"   2GF  26  
2GF  "H1'"   "H1'"   H   0  1  N  N  N   3.728  0.856  12.553  -1.062   1.812  -1.469  "H1'"   2GF  27  
2GF  H42     H42     H   0  1  N  N  N   8.311  5.280  14.218  -4.861  -2.458   2.007  H42     2GF  28  
2GF  H41     H41     H   0  1  N  N  N   7.129  6.164  15.123  -5.806  -1.975   0.704  H41     2GF  29  
2GF  H6      H6      H   0  1  N  N  N   3.041  3.805  14.724  -3.191   1.043  -1.711  H6      2GF  30  
2GF  OP3     O3P     O   0  1  N  Y  N       ?      ?       ?   4.684  -2.283  -1.290  O3P     2GF  31  
2GF  H4      H4      H   0  1  N  N  N       ?      ?       ?   5.426  -2.869  -1.087  H4      2GF  32  
#   #
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
2GF  O2     C2      DOUB  N  N   1  
2GF  "O4'"  "C4'"   SING  N  N   2  
2GF  "O4'"  "C1'"   SING  N  N   3  
2GF  "C4'"  "C5'"   SING  N  N   4  
2GF  "C4'"  "C3'"   SING  N  N   5  
2GF  "C5'"  "O5'"   SING  N  N   6  
2GF  C2     N3      SING  N  N   7  
2GF  C2     N1      SING  N  N   8  
2GF  "C1'"  N1      SING  N  N   9  
2GF  "C1'"  "C2'"   SING  N  N  10  
2GF  N3     C4      DOUB  N  N  11  
2GF  OP1    P       SING  N  N  12  
2GF  N1     C6      SING  N  N  13  
2GF  P      "O5'"   SING  N  N  14  
2GF  P      OP2     DOUB  N  N  15  
2GF  "C3'"  "O3'"   DOUB  N  N  16  
2GF  "C3'"  "C2'"   SING  N  N  17  
2GF  C4     N4      SING  N  N  18  
2GF  C4     C5      SING  N  N  19  
2GF  C6     C5      DOUB  N  N  20  
2GF  C5     CL      SING  N  N  21  
2GF  OP1    H1      SING  N  N  22  
2GF  "C5'"  "H5'1"  SING  N  N  23  
2GF  "C5'"  "H5'2"  SING  N  N  24  
2GF  "C4'"  "H4'"   SING  N  N  25  
2GF  "C2'"  "H2'2"  SING  N  N  26  
2GF  "C2'"  "H2'"   SING  N  N  27  
2GF  "C1'"  "H1'"   SING  N  N  28  
2GF  N4     H42     SING  N  N  29  
2GF  N4     H41     SING  N  N  30  
2GF  C6     H6      SING  N  N  31  
2GF  P      OP3     SING  N  N  32  
2GF  OP3    H4      SING  N  N  33  
#   #
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
2GF  SMILES            ACDLabs               12.01  "O=P(O)(O)OCC2OC(N1C(=O)N=C(N)C(Cl)=C1)CC2=O"  
2GF  InChI             InChI                 1.03   "InChI=1S/C9H11ClN3O7P/c10-4-2-13(9(15)12-8(4)11)7-1-5(14)6(20-7)3-19-21(16,17)18/h2,6-7H,1,3H2,(H2,11,12,15)(H2,16,17,18)/t6-,7-/m1/s1"  
2GF  InChIKey          InChI                 1.03   ALLUETJMPVZHQY-RNFRBKRXSA-N  
2GF  SMILES_CANONICAL  CACTVS                3.385  "NC1=NC(=O)N(C=C1Cl)[C@H]2CC(=O)[C@@H](CO[P](O)(O)=O)O2"  
2GF  SMILES            CACTVS                3.385  "NC1=NC(=O)N(C=C1Cl)[CH]2CC(=O)[CH](CO[P](O)(O)=O)O2"  
2GF  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.6  "C1[C@@H](O[C@@H](C1=O)COP(=O)(O)O)N2C=C(C(=NC2=O)N)Cl"  
2GF  SMILES            "OpenEye OEToolkits"  1.7.6  "C1C(OC(C1=O)COP(=O)(O)O)N2C=C(C(=NC2=O)N)Cl"  
#   #
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
2GF  "SYSTEMATIC NAME"  ACDLabs               12.01  "[(2R,5R)-5-(4-amino-5-chloro-2-oxopyrimidin-1(2H)-yl)-3-oxotetrahydrofuran-2-yl]methyl dihydrogen phosphate"  
2GF  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.7.6  "[(2R,5R)-5-(4-azanyl-5-chloranyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanylidene-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
2GF  "Create component"  2013-10-15  RCSB  
2GF  "Initial release"   2013-11-06  RCSB  
2GF  "Modify synonyms"   2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     2GF
_pdbx_chem_comp_synonyms.name        "5-CHLORO DEOXYCYTIDINE-5'-MONOPHOSPHATE"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
