data_45A
#

_chem_comp.id                                   45A
_chem_comp.name                                 "5'-O-[(S)-hydroxy(methyl)phosphoryl]adenosine"
_chem_comp.type                                 "RNA LINKING"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C11 H16 N5 O6 P"
_chem_comp.mon_nstd_parent_comp_id              A
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2015-02-09
_chem_comp.pdbx_modified_date                   2019-05-07
_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                       345.248
_chem_comp.one_letter_code                      A
_chem_comp.three_letter_code                    45A
_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       4Y27
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 EBI
#   #
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
45A  P       P1   P  0  1  N  N  N  13.785  -10.798  -3.209   4.807  -0.994  -0.100  P       45A   1  
45A  "O4'"   O1   O  0  1  N  N  N  10.925  -13.718  -1.935   0.596   0.236  -0.519  "O4'"   45A   2  
45A  "C4'"   C1   C  0  1  N  N  R  10.802  -13.342  -3.277   1.566   1.280  -0.331  "C4'"   45A   3  
45A  "C3'"   C2   C  0  1  N  N  S   9.649  -12.382  -3.292   0.912   2.361   0.552  "C3'"   45A   4  
45A  "C2'"   C3   C  0  1  N  N  R   8.769  -13.052  -2.273  -0.526   1.838   0.788  "C2'"   45A   5  
45A  "O3'"   O2   O  0  1  N  N  N   9.040  -12.196  -4.538   0.882   3.615  -0.132  "O3'"   45A   6  
45A  C6      C4   C  0  1  Y  N  N   9.264  -10.791   2.784  -5.014  -1.444   0.073  C6      45A   7  
45A  "C1'"   C5   C  0  1  N  N  R   9.748  -13.430  -1.225  -0.707   0.844  -0.387  "C1'"   45A   8  
45A  C4      C6   C  0  1  Y  N  N   9.272  -12.324   0.922  -3.065  -0.073  -0.292  C4      45A   9  
45A  N3      N1   N  0  1  Y  N  N   8.244  -13.042   1.419  -3.862   0.842  -0.834  N3      45A  10  
45A  C2      C7   C  0  1  Y  N  N   7.849  -12.494   2.590  -5.159   0.632  -0.926  C2      45A  11  
45A  N1      N2   N  0  1  Y  N  N   8.255  -11.437   3.274  -5.731  -0.473  -0.484  N1      45A  12  
45A  C31     C8   C  0  1  N  N  N  14.318  -10.764  -4.865   5.403  -1.959  -1.527  C31     45A  13  
45A  OP2     O3   O  0  1  N  N  N  13.665   -9.504  -2.542   5.845  -0.019   0.304  OP2     45A  14  
45A  "O5'"   O4   O  0  1  N  N  N  12.408  -11.531  -3.163   3.462  -0.208  -0.507  "O5'"   45A  15  
45A  "C5'"   C9   C  0  1  N  N  N  12.100  -12.748  -3.834   2.808   0.717   0.363  "C5'"   45A  16  
45A  "O2'"   O5   O  0  1  N  N  N   8.089  -14.101  -2.857  -1.475   2.903   0.707  "O2'"   45A  17  
45A  N9      N3   N  0  1  Y  N  N   9.996  -12.445  -0.196  -1.716  -0.166  -0.058  N9      45A  18  
45A  C5      C10  C  0  1  Y  N  N   9.817  -11.170   1.572  -3.625  -1.269   0.189  C5      45A  19  
45A  N7      N4   N  0  1  Y  N  N  10.887  -10.632   0.726  -2.608  -2.015   0.683  N7      45A  20  
45A  C8      C11  C  0  1  Y  N  N  10.870  -11.505  -0.308  -1.487  -1.370   0.539  C8      45A  21  
45A  N6      N5   N  0  1  N  N  N   9.824   -9.664   3.427  -5.623  -2.598   0.534  N6      45A  22  
45A  O1      O6   O  0  1  N  Y  N  14.843  -11.782  -2.527   4.497  -1.988   1.129  O1      45A  23  
45A  "H4'"   H1   H  0  1  N  N  N  10.536  -14.217  -3.888   1.843   1.707  -1.296  "H4'"   45A  24  
45A  "H3'"   H2   H  0  1  N  N  N   9.987  -11.417  -2.887   1.445   2.454   1.498  "H3'"   45A  25  
45A  "H2'"   H3   H  0  1  N  N  N   8.067  -12.311  -1.864  -0.600   1.325   1.747  "H2'"   45A  26  
45A  H1      H4   H  0  1  N  N  N   8.325  -11.576  -4.452   0.481   4.332   0.378  H1      45A  27  
45A  "H1'"   H5   H  0  1  N  N  N   9.388  -14.351  -0.743  -0.978   1.374  -1.300  "H1'"   45A  28  
45A  H2      H6   H  0  1  N  N  N   7.038  -13.027   3.063  -5.778   1.396  -1.372  H2      45A  29  
45A  H32     H7   H  0  0  N  N  N  15.289  -10.252  -4.928   5.612  -1.286  -2.358  H32     45A  30  
45A  H33     H8   H  0  0  N  N  N  14.422  -11.794  -5.238   6.313  -2.491  -1.251  H33     45A  31  
45A  H31     H9   H  0  0  N  N  N  13.579  -10.225  -5.477   4.638  -2.677  -1.824  H31     45A  32  
45A  "H5'1"  H10  H  0  0  N  N  N  12.921  -13.464  -3.684   3.490   1.533   0.605  "H5'1"  45A  33  
45A  "H5'2"  H11  H  0  0  N  N  N  11.978  -12.550  -4.909   2.511   0.207   1.280  "H5'2"  45A  34  
45A  "HO2'"  H12  H  0  0  N  N  N   7.535  -14.520  -2.209  -1.345   3.597   1.367  "HO2'"  45A  35  
45A  H8      H13  H  0  1  N  N  N  11.533  -11.421  -1.156  -0.518  -1.735   0.847  H8      45A  36  
45A  H61     H14  H  0  1  N  N  N   9.323   -9.479   4.272  -6.584  -2.705   0.452  H61     45A  37  
45A  H62     H15  H  0  1  N  N  N  10.784   -9.845   3.641  -5.089  -3.299   0.938  H62     45A  38  
45A  H3      H16  H  0  1  N  N  N  15.235  -11.354  -1.775   5.265  -2.495   1.427  H3      45A  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
45A  C31    P       SING  N  N   1  
45A  "O3'"  "C3'"   SING  N  N   2  
45A  "C5'"  "C4'"   SING  N  N   3  
45A  "C5'"  "O5'"   SING  N  N   4  
45A  "C3'"  "C4'"   SING  N  N   5  
45A  "C3'"  "C2'"   SING  N  N   6  
45A  "C4'"  "O4'"   SING  N  N   7  
45A  P      "O5'"   SING  N  N   8  
45A  P      OP2     DOUB  N  N   9  
45A  "O2'"  "C2'"   SING  N  N  10  
45A  "C2'"  "C1'"   SING  N  N  11  
45A  "O4'"  "C1'"   SING  N  N  12  
45A  "C1'"  N9      SING  N  N  13  
45A  C8     N9      SING  Y  N  14  
45A  C8     N7      DOUB  Y  N  15  
45A  N9     C4      SING  Y  N  16  
45A  N7     C5      SING  Y  N  17  
45A  C4     N3      DOUB  Y  N  18  
45A  C4     C5      SING  Y  N  19  
45A  N3     C2      SING  Y  N  20  
45A  C5     C6      DOUB  Y  N  21  
45A  C2     N1      DOUB  Y  N  22  
45A  C6     N1      SING  Y  N  23  
45A  C6     N6      SING  N  N  24  
45A  P      O1      SING  N  N  25  
45A  "C4'"  "H4'"   SING  N  N  26  
45A  "C3'"  "H3'"   SING  N  N  27  
45A  "C2'"  "H2'"   SING  N  N  28  
45A  "O3'"  H1      SING  N  N  29  
45A  "C1'"  "H1'"   SING  N  N  30  
45A  C2     H2      SING  N  N  31  
45A  C31    H32     SING  N  N  32  
45A  C31    H33     SING  N  N  33  
45A  C31    H31     SING  N  N  34  
45A  "C5'"  "H5'1"  SING  N  N  35  
45A  "C5'"  "H5'2"  SING  N  N  36  
45A  "O2'"  "HO2'"  SING  N  N  37  
45A  C8     H8      SING  N  N  38  
45A  N6     H61     SING  N  N  39  
45A  N6     H62     SING  N  N  40  
45A  O1     H3      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
45A  SMILES            ACDLabs               12.01  "O=P(O)(OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O)C"  
45A  InChI             InChI                 1.03   "InChI=1S/C11H16N5O6P/c1-23(19,20)21-2-5-7(17)8(18)11(22-5)16-4-15-6-9(12)13-3-14-10(6)16/h3-5,7-8,11,17-18H,2H2,1H3,(H,19,20)(H2,12,13,14)/t5-,7-,8-,11-/m1/s1"  
45A  InChIKey          InChI                 1.03   PXSSQXBLDTZHLF-IOSLPCCCSA-N  
45A  SMILES_CANONICAL  CACTVS                3.385  "C[P](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23"  
45A  SMILES            CACTVS                3.385  "C[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23"  
45A  SMILES_CANONICAL  "OpenEye OEToolkits"  1.9.2  "CP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O"  
45A  SMILES            "OpenEye OEToolkits"  1.9.2  "CP(=O)(O)OCC1C(C(C(O1)n2cnc3c2ncnc3N)O)O"  
#   #
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
45A  "SYSTEMATIC NAME"  ACDLabs               12.01  "5'-O-[(S)-hydroxy(methyl)phosphoryl]adenosine"  
45A  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.9.2  "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-methyl-phosphinic acid"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
45A  "Create component"    2015-02-09  EBI   
45A  "Initial release"     2015-11-18  RCSB  
45A  "Other modification"  2019-05-07  EBI   
##
