data_A5L
#

_chem_comp.id                                   A5L
_chem_comp.name                                 "9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-9H-purin-6-amine"
_chem_comp.type                                 "DNA LINKING"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C10 H13 F N5 O6 P"
_chem_comp.mon_nstd_parent_comp_id              DA
_chem_comp.pdbx_synonyms                        "2'-DEOXY-2'-FLUORO-ARABINO-FURANOSYL ADENINE-5'-PHOSPHATE"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2009-10-21
_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                       349.212
_chem_comp.one_letter_code                      A
_chem_comp.three_letter_code                    A5L
_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       2KP4
_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
A5L  F       F       F  0  1  N  N  N  -2.145  -3.632   -7.778   1.606   2.099  -1.084  F       A5L   1  
A5L  P       P       P  0  1  N  N  N  -1.051  -6.695  -10.935  -4.857  -0.981   0.109  P       A5L   2  
A5L  N1      N1      N  0  1  Y  N  N  -3.076  -5.300   -1.249   5.779  -0.511   0.697  N1      A5L   3  
A5L  C2      C2      C  0  1  Y  N  N  -4.087  -5.547   -2.069   5.150   0.388   1.432  C2      A5L   4  
A5L  N3      N3      N  0  1  Y  N  N  -4.102  -5.460   -3.393   3.855   0.602   1.331  N3      A5L   5  
A5L  C4      C4      C  0  1  Y  N  N  -2.894  -5.074   -3.891   3.118  -0.092   0.470  C4      A5L   6  
A5L  C5      C5      C  0  1  Y  N  N  -1.763  -4.795   -3.171   3.741  -1.061  -0.335  C5      A5L   7  
A5L  C6      C6      C  0  1  Y  N  N  -1.908  -4.928   -1.771   5.125  -1.253  -0.191  C6      A5L   8  
A5L  N6      N6      N  0  1  N  N  N  -0.969  -4.662   -0.880   5.793  -2.193  -0.956  N6      A5L   9  
A5L  N7      N7      N  0  1  Y  N  N  -0.719  -4.402   -4.009   2.778  -1.615  -1.110  N7      A5L  10  
A5L  C8      C8      C  0  1  Y  N  N  -1.267  -4.440   -5.194   1.632  -1.060  -0.839  C8      A5L  11  
A5L  N9      N9      N  0  1  Y  N  N  -2.588  -4.827   -5.211   1.789  -0.115   0.130  N9      A5L  12  
A5L  "C1'"   "C1'"   C  0  1  N  N  R  -3.570  -4.896   -6.329   0.733   0.724   0.702  "C1'"   A5L  13  
A5L  "C2'"   "C2'"   C  0  1  N  N  S  -3.469  -3.845   -7.441   0.679   2.075  -0.036  "C2'"   A5L  14  
A5L  "C3'"   "C3'"   C  0  1  N  N  R  -4.206  -4.538   -8.595  -0.766   2.147  -0.590  "C3'"   A5L  15  
A5L  "O3'"   "O3'"   O  0  1  N  N  N  -5.607  -4.274   -8.702  -1.303   3.463  -0.443  "O3'"   A5L  16  
A5L  "C4'"   "C4'"   C  0  1  N  N  R  -3.984  -6.032   -8.312  -1.513   1.140   0.321  "C4'"   A5L  17  
A5L  "O4'"   "O4'"   O  0  1  N  N  N  -3.483  -6.159   -6.982  -0.544   0.087   0.530  "O4'"   A5L  18  
A5L  "C5'"   "C5'"   C  0  1  N  N  N  -3.133  -6.781   -9.343  -2.757   0.595  -0.384  "C5'"   A5L  19  
A5L  "O5'"   "O5'"   O  0  1  N  N  N  -2.064  -6.028   -9.881  -3.488  -0.238   0.517  "O5'"   A5L  20  
A5L  OP1     OP1     O  0  1  N  N  N  -1.745  -7.797  -11.633  -5.996   0.118  -0.189  OP1     A5L  21  
A5L  OP2     OP2     O  0  1  N  N  N  -0.396  -5.613  -11.698  -4.632  -1.799  -1.104  OP2     A5L  22  
A5L  OP3     OP3     O  0  1  N  Y  N   0.044  -7.323   -9.930  -5.333  -1.933   1.317  OP3     A5L  23  
A5L  H2      H2      H  0  1  N  N  N  -5.011  -5.857   -1.603   5.719   0.970   2.142  H2      A5L  24  
A5L  H8      H8      H  0  1  N  N  N  -0.725  -4.187   -6.093   0.694  -1.312  -1.313  H8      A5L  25  
A5L  HN6     HN6     H  0  1  N  N  N  -1.335  -4.798    0.041   6.749  -2.316  -0.848  HN6     A5L  26  
A5L  HN6A    HN6A    H  0  0  N  N  N  -0.191  -5.274   -1.023   5.305  -2.728  -1.602  HN6A    A5L  27  
A5L  "H5'"   "H5'"   H  0  1  N  N  N  -2.706  -7.666   -8.848  -3.386   1.426  -0.703  "H5'"   A5L  28  
A5L  "H5'A"  "H5'A"  H  0  0  N  N  N  -3.791  -7.072  -10.175  -2.455   0.013  -1.254  "H5'A"  A5L  29  
A5L  "H1'"   "H1'"   H  0  1  N  N  N  -4.519  -4.709   -5.806   0.925   0.888   1.763  "H1'"   A5L  30  
A5L  "H2'"   "H2'"   H  0  1  N  N  N  -3.881  -2.862   -7.170   0.865   2.896   0.656  "H2'"   A5L  31  
A5L  "H3'"   "H3'"   H  0  1  N  N  N  -3.811  -4.165   -9.552  -0.799   1.828  -1.631  "H3'"   A5L  32  
A5L  "H4'"   "H4'"   H  0  1  N  N  N  -4.957  -6.536   -8.408  -1.781   1.605   1.270  "H4'"   A5L  33  
A5L  "HO3'"  "HO3'"  H  0  0  N  N  N  -5.963  -4.748   -9.444  -0.813   4.143  -0.924  "HO3'"  A5L  34  
A5L  HOP1    HOP1    H  0  0  N  N  N  -1.682  -7.667  -12.572  -6.195   0.691   0.564  HOP1    A5L  35  
A5L  HOP3    HOP3    H  0  0  N  Y  N   0.872  -6.869  -10.039  -6.153  -2.412   1.140  HOP3    A5L  36  
#   #
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
A5L  F      "C2'"   SING  N  N   1  
A5L  OP2    P       DOUB  N  N   2  
A5L  OP1    P       SING  N  N   3  
A5L  P      OP3     SING  N  N   4  
A5L  P      "O5'"   SING  N  N   5  
A5L  C2     N1      DOUB  Y  N   6  
A5L  C6     N1      SING  Y  N   7  
A5L  N3     C2      SING  Y  N   8  
A5L  C2     H2      SING  N  N   9  
A5L  C4     N3      DOUB  Y  N  10  
A5L  N9     C4      SING  Y  N  11  
A5L  C4     C5      SING  Y  N  12  
A5L  N7     C5      SING  Y  N  13  
A5L  C5     C6      DOUB  Y  N  14  
A5L  C6     N6      SING  N  N  15  
A5L  HN6    N6      SING  N  N  16  
A5L  N6     HN6A    SING  N  N  17  
A5L  C8     N7      DOUB  Y  N  18  
A5L  H8     C8      SING  N  N  19  
A5L  N9     C8      SING  Y  N  20  
A5L  "C1'"  N9      SING  N  N  21  
A5L  "C2'"  "C1'"   SING  N  N  22  
A5L  "O4'"  "C1'"   SING  N  N  23  
A5L  "C1'"  "H1'"   SING  N  N  24  
A5L  "C3'"  "C2'"   SING  N  N  25  
A5L  "C2'"  "H2'"   SING  N  N  26  
A5L  "H3'"  "C3'"   SING  N  N  27  
A5L  "O3'"  "C3'"   SING  N  N  28  
A5L  "C3'"  "C4'"   SING  N  N  29  
A5L  "O3'"  "HO3'"  SING  N  N  30  
A5L  "C5'"  "C4'"   SING  N  N  31  
A5L  "H4'"  "C4'"   SING  N  N  32  
A5L  "C4'"  "O4'"   SING  N  N  33  
A5L  "H5'"  "C5'"   SING  N  N  34  
A5L  "O5'"  "C5'"   SING  N  N  35  
A5L  "C5'"  "H5'A"  SING  N  N  36  
A5L  OP1    HOP1    SING  N  N  37  
A5L  OP3    HOP3    SING  N  N  38  
#   #
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
A5L  SMILES            ACDLabs               11.02  "O=P(O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(F)C3O"  
A5L  SMILES_CANONICAL  CACTVS                3.352  "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@@H]3F"  
A5L  SMILES            CACTVS                3.352  "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3F"  
A5L  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.0  "c1nc(c2c(n1)n(cn2)[C@H]3[C@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)F)N"  
A5L  SMILES            "OpenEye OEToolkits"  1.7.0  "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)O)O)F)N"  
A5L  InChI             InChI                 1.03   "InChI=1S/C10H13FN5O6P/c11-5-7(17)4(1-21-23(18,19)20)22-10(5)16-3-15-6-8(12)13-2-14-9(6)16/h2-5,7,10,17H,1H2,(H2,12,13,14)(H2,18,19,20)/t4-,5+,7-,10-/m1/s1"  
A5L  InChIKey          InChI                 1.03   WMEBOUQKZKATDW-GQTRHBFLSA-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
A5L  "SYSTEMATIC NAME"  ACDLabs               11.02  "9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-9H-purin-6-amine"  
A5L  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.6.1  "[(2R,3R,4S,5R)-5-(6-aminopurin-9-yl)-4-fluoro-3-hydroxy-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
A5L  "Create component"      2009-10-21  RCSB  
A5L  "Modify aromatic_flag"  2011-06-04  RCSB  
A5L  "Modify descriptor"     2011-06-04  RCSB  
A5L  "Modify synonyms"       2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     A5L
_pdbx_chem_comp_synonyms.name        "2'-DEOXY-2'-FLUORO-ARABINO-FURANOSYL ADENINE-5'-PHOSPHATE"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
