data_IM5
#

_chem_comp.id                                   IM5
_chem_comp.name                                 "2-amino-7-{[(3R,4R)-3-hydroxy-4-(hydroxymethyl)pyrrolidin-1-yl]methyl}-3,5-dihydro-4H-pyrrolo[3,2-d]pyrimidin-4-one"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C12 H17 N5 O3"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        DADMe-ImmG
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2010-11-05
_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                       279.295
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    IM5
_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       3PHB
_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
IM5  N1      N1      N  0  1  N  N  N  -41.449   3.900  -2.332   4.063   0.977  -0.482  N1      IM5   1  
IM5  C2      C2      C  0  1  N  N  N  -41.313   2.858  -3.191   3.032   1.794  -0.123  C2      IM5   2  
IM5  N2      N2      N  0  1  N  N  N  -40.109   2.579  -3.716   3.175   3.153  -0.268  N2      IM5   3  
IM5  N3      N3      N  0  1  N  N  N  -42.334   2.073  -3.547   1.906   1.320   0.355  N3      IM5   4  
IM5  C4      C4      C  0  1  Y  N  N  -43.553   2.352  -3.038   1.724  -0.006   0.511  C4      IM5   5  
IM5  C5      C5      C  0  1  Y  N  N  -43.800   3.445  -2.101   2.750  -0.890   0.159  C5      IM5   6  
IM5  C6      C6      C  0  1  N  N  N  -42.609   4.248  -1.752   3.951  -0.363  -0.352  C6      IM5   7  
IM5  O6      O6      O  0  1  N  N  N  -42.681   5.228  -0.970   4.867  -1.100  -0.677  O6      IM5   8  
IM5  N7      N7      N  0  1  Y  N  N  -45.101   3.421  -1.813   2.299  -2.167   0.420  N7      IM5   9  
IM5  C8      C8      C  0  1  Y  N  N  -45.733   2.408  -2.469   1.034  -2.090   0.918  C8      IM5  10  
IM5  C9      C9      C  0  1  Y  N  N  -44.841   1.680  -3.243   0.656  -0.798   0.987  C9      IM5  11  
IM5  "N1'"   "N1'"   N  0  1  N  N  N  -44.856  -0.791  -3.605  -1.537   0.023   0.337  "N1'"   IM5  12  
IM5  C10     C10     C  0  1  N  N  N  -45.119   0.512  -4.164  -0.673  -0.288   1.484  C10     IM5  13  
IM5  "C2'"   "C2'"   C  0  1  N  N  N  -43.422  -1.095  -3.592  -1.965  -1.218  -0.359  "C2'"   IM5  14  
IM5  "C3'"   "C3'"   C  0  1  N  N  R  -43.417  -2.332  -2.709  -3.232  -0.808  -1.140  "C3'"   IM5  15  
IM5  "O3'"   "O3'"   O  0  1  N  N  N  -43.739  -3.468  -3.517  -2.895  -0.456  -2.484  "O3'"   IM5  16  
IM5  "C4'"   "C4'"   C  0  1  N  N  R  -44.529  -2.117  -1.702  -3.787   0.418  -0.388  "C4'"   IM5  17  
IM5  "C5'"   "C5'"   C  0  1  N  N  N  -43.974  -1.729  -0.348  -5.193   0.125   0.142  "C5'"   IM5  18  
IM5  "O5'"   "O5'"   O  0  1  N  N  N  -45.068  -1.284   0.459  -5.735   1.308   0.732  "O5'"   IM5  19  
IM5  "C6'"   "C6'"   C  0  1  N  N  N  -45.351  -0.948  -2.233  -2.809   0.647   0.784  "C6'"   IM5  20  
IM5  HN1     HN1     H  0  1  N  N  N  -40.636   4.441  -2.118   4.881   1.360  -0.837  HN1     IM5  21  
IM5  HN2     HN2     H  0  1  N  N  N  -40.004   1.810  -4.346   4.002   3.519  -0.620  HN2     IM5  22  
IM5  HN2A    HN2A    H  0  0  N  N  N  -39.317   3.141  -3.477   2.451   3.747  -0.017  HN2A    IM5  23  
IM5  H8      H8      H  0  1  N  N  N  -46.790   2.199  -2.396   0.428  -2.934   1.213  H8      IM5  24  
IM5  H10     H10     H  0  1  N  N  N  -46.180   0.551  -4.451  -1.147  -1.052   2.100  H10     IM5  25  
IM5  H10A    H10A    H  0  0  N  N  N  -44.492   0.630  -5.060  -0.518   0.613   2.077  H10A    IM5  26  
IM5  "H2'"   "H2'"   H  0  1  N  N  N  -43.043  -1.313  -4.601  -1.188  -1.555  -1.045  "H2'"   IM5  27  
IM5  "H2'A"  "H2'A"  H  0  0  N  N  N  -42.836  -0.276  -3.149  -2.200  -1.998   0.364  "H2'A"  IM5  28  
IM5  "H3'"   "H3'"   H  0  1  N  N  N  -42.447  -2.446  -2.202  -3.960  -1.619  -1.132  "H3'"   IM5  29  
IM5  "HO3'"  "HO3'"  H  0  0  N  N  N  -43.740  -4.250  -2.978  -2.499  -1.177  -2.992  "HO3'"  IM5  30  
IM5  "H4'"   "H4'"   H  0  1  N  N  N  -45.154  -3.019  -1.619  -3.805   1.289  -1.044  "H4'"   IM5  31  
IM5  "H5'"   "H5'"   H  0  1  N  N  N  -43.491  -2.598   0.122  -5.831  -0.196  -0.681  "H5'"   IM5  32  
IM5  "H5'A"  "H5'A"  H  0  0  N  N  N  -43.239  -0.919  -0.463  -5.141  -0.664   0.891  "H5'A"  IM5  33  
IM5  "HO5'"  "HO5'"  H  0  0  N  N  N  -44.747  -1.033   1.317  -6.627   1.195   1.090  "HO5'"  IM5  34  
IM5  "H6'"   "H6'"   H  0  1  N  N  N  -45.172  -0.038  -1.642  -3.177   0.158   1.686  "H6'"   IM5  35  
IM5  "H6'A"  "H6'A"  H  0  0  N  N  N  -46.425  -1.185  -2.225  -2.668   1.714   0.959  "H6'A"  IM5  36  
IM5  HN7     HN7     H  0  1  N  N  N  -45.555   4.063  -1.195   2.799  -2.984   0.272  HN7     IM5  37  
#   #
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
IM5  C2     N1      SING  N  N   1  
IM5  N1     C6      SING  N  N   2  
IM5  N1     HN1     SING  N  N   3  
IM5  N2     C2      SING  N  N   4  
IM5  N3     C2      DOUB  N  N   5  
IM5  N2     HN2     SING  N  N   6  
IM5  N2     HN2A    SING  N  N   7  
IM5  N3     C4      SING  N  N   8  
IM5  C9     C4      SING  Y  N   9  
IM5  C4     C5      DOUB  Y  N  10  
IM5  C5     N7      SING  Y  N  11  
IM5  C5     C6      SING  N  N  12  
IM5  C6     O6      DOUB  N  N  13  
IM5  C8     N7      SING  Y  N  14  
IM5  C9     C8      DOUB  Y  N  15  
IM5  C8     H8      SING  N  N  16  
IM5  C10    C9      SING  N  N  17  
IM5  C10    "N1'"   SING  N  N  18  
IM5  "N1'"  "C2'"   SING  N  N  19  
IM5  "N1'"  "C6'"   SING  N  N  20  
IM5  C10    H10     SING  N  N  21  
IM5  C10    H10A    SING  N  N  22  
IM5  "C2'"  "C3'"   SING  N  N  23  
IM5  "C2'"  "H2'"   SING  N  N  24  
IM5  "C2'"  "H2'A"  SING  N  N  25  
IM5  "O3'"  "C3'"   SING  N  N  26  
IM5  "C3'"  "C4'"   SING  N  N  27  
IM5  "C3'"  "H3'"   SING  N  N  28  
IM5  "O3'"  "HO3'"  SING  N  N  29  
IM5  "C6'"  "C4'"   SING  N  N  30  
IM5  "C4'"  "C5'"   SING  N  N  31  
IM5  "C4'"  "H4'"   SING  N  N  32  
IM5  "C5'"  "O5'"   SING  N  N  33  
IM5  "C5'"  "H5'"   SING  N  N  34  
IM5  "C5'"  "H5'A"  SING  N  N  35  
IM5  "O5'"  "HO5'"  SING  N  N  36  
IM5  "C6'"  "H6'"   SING  N  N  37  
IM5  "C6'"  "H6'A"  SING  N  N  38  
IM5  N7     HN7     SING  N  N  39  
#   #
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
IM5  SMILES            ACDLabs               12.01  "O=C2NC(=Nc1c(cnc12)CN3CC(C(O)C3)CO)N"  
IM5  InChI             InChI                 1.03   "InChI=1S/C12H17N5O3/c13-12-15-9-6(1-14-10(9)11(20)16-12)2-17-3-7(5-18)8(19)4-17/h1,7-8,14,18-19H,2-5H2,(H3,13,15,16,20)/t7-,8+/m1/s1"  
IM5  InChIKey          InChI                 1.03   GSPTUGDLYPMLCQ-SFYZADRCSA-N  
IM5  SMILES_CANONICAL  CACTVS                3.370  "NC1=Nc2c(CN3C[C@H](O)[C@@H](CO)C3)c[nH]c2C(=O)N1"  
IM5  SMILES            CACTVS                3.370  "NC1=Nc2c(CN3C[CH](O)[CH](CO)C3)c[nH]c2C(=O)N1"  
IM5  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.6  "c1c(c2c([nH]1)C(=O)NC(=N2)N)CN3C[C@@H]([C@H](C3)O)CO"  
IM5  SMILES            "OpenEye OEToolkits"  1.7.6  "c1c(c2c([nH]1)C(=O)NC(=N2)N)CN3CC(C(C3)O)CO"  
#   #
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
IM5  "SYSTEMATIC NAME"  ACDLabs               12.01  "2-amino-7-{[(3R,4R)-3-hydroxy-4-(hydroxymethyl)pyrrolidin-1-yl]methyl}-3,5-dihydro-4H-pyrrolo[3,2-d]pyrimidin-4-one"  
IM5  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.7.6  "2-azanyl-7-[[(3R,4R)-3-(hydroxymethyl)-4-oxidanyl-pyrrolidin-1-yl]methyl]-3,5-dihydropyrrolo[3,2-d]pyrimidin-4-one"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
IM5  "Create component"      2010-11-05  RCSB  
IM5  "Modify aromatic_flag"  2011-06-04  RCSB  
IM5  "Modify descriptor"     2011-06-04  RCSB  
IM5  "Modify synonyms"       2011-12-05  RCSB  
IM5  "Modify synonyms"       2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     IM5
_pdbx_chem_comp_synonyms.name        DADMe-ImmG
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
