data_1DP
#

_chem_comp.id                                   1DP
_chem_comp.name                                 "N1-deaza-adenosine-5'-monophosphate"
_chem_comp.type                                 "RNA LINKING"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C11 H15 N4 O7 P"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "3-(5-O-phosphono-beta-D-ribofuranosyl)-3H-imidazo[4,5-b]pyridin-7-amine"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2009-07-01
_chem_comp.pdbx_modified_date                   2021-03-13
_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                       346.233
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    1DP
_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       3I2Q
_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
1DP  O3P     O3P     O  0  1  N  Y  N  41.119  19.805  60.235  -5.130   2.082  -1.237  O3P     1DP   1  
1DP  P       P       P  0  1  N  N  N  41.322  20.381  58.754  -4.753   1.026  -0.081  P       1DP   2  
1DP  O1P     O1P     O  0  1  N  N  N  39.971  20.409  58.136  -4.530   1.746   1.192  O1P     1DP   3  
1DP  O2P     O2P     O  0  1  N  N  N  42.122  21.631  58.824  -5.960  -0.024   0.101  O2P     1DP   4  
1DP  "O5'"   "O5'"   O  0  1  N  N  N  42.194  19.261  58.032  -3.412   0.236  -0.493  "O5'"   1DP   5  
1DP  "C5'"   "C5'"   C  0  1  N  N  N  43.538  19.006  58.414  -2.761  -0.697   0.372  "C5'"   1DP   6  
1DP  "C4'"   "C4'"   C  0  1  N  N  R  44.142  17.985  57.482  -1.523  -1.262  -0.327  "C4'"   1DP   7  
1DP  "O4'"   "O4'"   O  0  1  N  N  N  43.444  16.726  57.650  -0.548  -0.222  -0.511  "O4'"   1DP   8  
1DP  "C1'"   "C1'"   C  0  1  N  N  R  43.319  16.077  56.397   0.753  -0.835  -0.380  "C1'"   1DP   9  
1DP  N9      N9      N  0  1  Y  N  N  41.902  16.049  56.050   1.766   0.170  -0.051  N9      1DP  10  
1DP  C4      C4      C  0  1  Y  N  N  41.328  15.336  55.031   3.119   0.073  -0.292  C4      1DP  11  
1DP  N3      N3      N  0  1  Y  N  N  41.945  14.517  54.165   3.888  -0.856  -0.842  N3      1DP  12  
1DP  C2      C2      C  0  1  Y  N  N  41.069  14.009  53.307   5.192  -0.700  -0.956  C2      1DP  13  
1DP  C1      C1      C  0  1  Y  N  N  39.747  14.212  53.227   5.823   0.445  -0.507  C1      1DP  14  
1DP  C6      C6      C  0  1  Y  N  N  39.163  15.040  54.119   5.069   1.456   0.079  C6      1DP  15  
1DP  N6      N6      N  0  1  N  N  N  37.848  15.241  54.046   5.671   2.621   0.543  N6      1DP  16  
1DP  C5      C5      C  0  1  Y  N  N  39.980  15.641  55.073   3.681   1.266   0.190  C5      1DP  17  
1DP  N7      N7      N  0  1  Y  N  N  39.706  16.523  56.103   2.667   2.014   0.690  N7      1DP  18  
1DP  C8      C8      C  0  1  Y  N  N  40.876  16.731  56.653   1.543   1.375   0.545  C8      1DP  19  
1DP  "C2'"   "C2'"   C  0  1  N  N  R  44.114  16.898  55.385   0.566  -1.831   0.793  "C2'"   1DP  20  
1DP  "O2'"   "O2'"   O  0  1  N  N  N  45.446  16.438  55.348   1.511  -2.900   0.710  "O2'"   1DP  21  
1DP  "C3'"   "C3'"   C  0  1  N  N  S  44.024  18.286  55.995  -0.874  -2.347   0.554  "C3'"   1DP  22  
1DP  "O3'"   "O3'"   O  0  1  N  Y  N  45.097  19.091  55.536  -0.849  -3.600  -0.133  "O3'"   1DP  23  
1DP  HO3P    HO3P    H  0  0  N  Y  N  41.079  18.856  60.204  -5.930   2.595  -1.055  HO3P    1DP  24  
1DP  HO2P    HO2P    H  0  0  N  N  N  42.293  21.848  59.733  -6.162  -0.533  -0.696  HO2P    1DP  25  
1DP  "H5'"   "H5'"   H  0  1  N  N  N  44.118  19.939  58.360  -2.461  -0.192   1.290  "H5'"   1DP  26  
1DP  "H5'A"  "H5'A"  H  0  0  N  N  N  43.559  18.619  59.444  -3.446  -1.510   0.611  "H5'A"  1DP  27  
1DP  "H4'"   "H4'"   H  0  1  N  N  N  45.208  17.978  57.753  -1.802  -1.683  -1.293  "H4'"   1DP  28  
1DP  "H1'"   "H1'"   H  0  1  N  N  N  43.701  15.046  56.414   1.022  -1.364  -1.294  "H1'"   1DP  29  
1DP  H2      H2      H  0  1  N  N  N  41.480  13.337  52.569   5.780  -1.484  -1.410  H2      1DP  30  
1DP  H1      H1      H  0  1  N  N  N  39.160  13.723  52.464   6.893   0.553  -0.609  H1      1DP  31  
1DP  HN6     HN6     H  0  1  N  N  N  37.466  15.291  54.969   6.630   2.738   0.460  HN6     1DP  32  
1DP  HN6A    HN6A    H  0  0  N  N  N  37.668  16.098  53.564   5.131   3.317   0.950  HN6A    1DP  33  
1DP  H8      H8      H  0  1  N  N  N  41.020  17.380  57.504   0.576   1.744   0.853  H8      1DP  34  
1DP  "H2'"   "H2'"   H  0  1  N  N  N  43.750  16.848  54.348   0.642  -1.320   1.753  "H2'"   1DP  35  
1DP  "HO2'"  "HO2'"  H  0  0  N  N  N  45.721  16.335  54.445   1.434  -3.549   1.422  "HO2'"  1DP  36  
1DP  "H3'"   "H3'"   H  0  1  N  N  N  43.110  18.842  55.738  -1.407  -2.440   1.500  "H3'"   1DP  37  
1DP  "HO3'"  "HO3'"  H  0  0  N  Y  N  44.985  19.271  54.610  -0.399  -4.306   0.352  "HO3'"  1DP  38  
#   #
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
1DP  P      O3P     SING  N  N   1  
1DP  O3P    HO3P    SING  N  N   2  
1DP  "O5'"  P       SING  N  N   3  
1DP  O1P    P       DOUB  N  N   4  
1DP  P      O2P     SING  N  N   5  
1DP  O2P    HO2P    SING  N  N   6  
1DP  "O5'"  "C5'"   SING  N  N   7  
1DP  "C4'"  "C5'"   SING  N  N   8  
1DP  "C5'"  "H5'"   SING  N  N   9  
1DP  "C5'"  "H5'A"  SING  N  N  10  
1DP  "C3'"  "C4'"   SING  N  N  11  
1DP  "C4'"  "O4'"   SING  N  N  12  
1DP  "C4'"  "H4'"   SING  N  N  13  
1DP  "C1'"  "O4'"   SING  N  N  14  
1DP  "C2'"  "C1'"   SING  N  N  15  
1DP  N9     "C1'"   SING  N  N  16  
1DP  "C1'"  "H1'"   SING  N  N  17  
1DP  C4     N9      SING  Y  N  18  
1DP  N9     C8      SING  Y  N  19  
1DP  N3     C4      DOUB  Y  N  20  
1DP  C4     C5      SING  Y  N  21  
1DP  C2     N3      SING  Y  N  22  
1DP  C1     C2      DOUB  Y  N  23  
1DP  C2     H2      SING  N  N  24  
1DP  C1     C6      SING  Y  N  25  
1DP  C1     H1      SING  N  N  26  
1DP  N6     C6      SING  N  N  27  
1DP  C6     C5      DOUB  Y  N  28  
1DP  N6     HN6     SING  N  N  29  
1DP  N6     HN6A    SING  N  N  30  
1DP  C5     N7      SING  Y  N  31  
1DP  N7     C8      DOUB  Y  N  32  
1DP  C8     H8      SING  N  N  33  
1DP  "O2'"  "C2'"   SING  N  N  34  
1DP  "C2'"  "C3'"   SING  N  N  35  
1DP  "C2'"  "H2'"   SING  N  N  36  
1DP  "O2'"  "HO2'"  SING  N  N  37  
1DP  "O3'"  "C3'"   SING  N  N  38  
1DP  "C3'"  "H3'"   SING  N  N  39  
1DP  "O3'"  "HO3'"  SING  N  N  40  
#   #
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
1DP  SMILES            ACDLabs               10.04  "O=P(O)(O)OCC3OC(n2cnc1c(N)ccnc12)C(O)C3O"  
1DP  SMILES_CANONICAL  CACTVS                3.341  "Nc1ccnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]3O"  
1DP  SMILES            CACTVS                3.341  "Nc1ccnc2n(cnc12)[CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3O"  
1DP  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "c1cnc2c(c1N)ncn2[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)O"  
1DP  SMILES            "OpenEye OEToolkits"  1.5.0  "c1cnc2c(c1N)ncn2C3C(C(C(O3)COP(=O)(O)O)O)O"  
1DP  InChI             InChI                 1.03   "InChI=1S/C11H15N4O7P/c12-5-1-2-13-10-7(5)14-4-15(10)11-9(17)8(16)6(22-11)3-21-23(18,19)20/h1-2,4,6,8-9,11,16-17H,3H2,(H2,12,13)(H2,18,19,20)/t6-,8-,9-,11-/m1/s1"  
1DP  InChIKey          InChI                 1.03   MKNCBTMEOTYSIQ-PNHWDRBUSA-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
1DP  "SYSTEMATIC NAME"  ACDLabs               10.04  "3-(5-O-phosphono-beta-D-ribofuranosyl)-3H-imidazo[4,5-b]pyridin-7-amine"  
1DP  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "[(2R,3S,4R,5R)-5-(7-aminoimidazo[5,4-b]pyridin-3-yl)-3,4-dihydroxy-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
1DP  "Create component"      2009-07-01  RCSB  
1DP  "Modify aromatic_flag"  2011-06-04  RCSB  
1DP  "Modify descriptor"     2011-06-04  RCSB  
1DP  "Modify synonyms"       2021-03-13  RCSB  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     1DP
_pdbx_chem_comp_synonyms.name        "3-(5-O-phosphono-beta-D-ribofuranosyl)-3H-imidazo[4,5-b]pyridin-7-amine"
_pdbx_chem_comp_synonyms.provenance  PDB
_pdbx_chem_comp_synonyms.type        ?
##
