data_Q84
#

_chem_comp.id                                   Q84
_chem_comp.name                                 "1,2-dideoxy-1-({2,6-dioxo-5-[(E)-(2-oxopropylidene)amino]-1,2,3,6-tetrahydropyrimidin-4-yl}amino)-D-erythro-pentitol"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C12 H18 N4 O6"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2019-10-02
_chem_comp.pdbx_modified_date                   2020-02-14
_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                       314.295
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    Q84
_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       6PUM
_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
Q84  C    C1   C  0  1  N  N  N  -0.648  30.425  255.163   4.554   3.914   0.795  C    Q84   1  
Q84  N    N1   N  0  1  N  N  N   0.434  27.810  255.161   2.521   1.038  -0.424  N    Q84   2  
Q84  C1   C2   C  0  1  N  N  N   0.564  30.009  255.958   3.582   3.102  -0.022  C1   Q84   3  
Q84  C10  C3   C  0  1  N  N  N   1.663  23.986  254.047   2.152  -2.976   0.254  C10  Q84   4  
Q84  C11  C4   C  0  1  N  N  N   2.217  26.036  255.291   3.574  -1.149  -0.093  C11  Q84   5  
Q84  C2   C5   C  0  1  N  N  N   1.164  28.698  255.729   3.366   1.743   0.286  C2   Q84   6  
Q84  C3   C6   C  0  1  N  N  N   0.928  26.528  254.917   2.393  -0.280  -0.201  C3   Q84   7  
Q84  C4   C7   C  0  1  N  N  N   0.075  25.807  254.090   1.125  -0.875  -0.064  C4   Q84   8  
Q84  C5   C8   C  0  1  N  N  N  -1.868  25.686  252.591  -1.320  -0.754  -0.009  C5   Q84   9  
Q84  C6   C9   C  0  1  N  N  N  -3.025  24.833  253.042  -2.414   0.306  -0.152  C6   Q84  10  
Q84  C7   C10  C  0  1  N  N  S  -2.589  23.436  253.418  -3.786  -0.353  -0.001  C7   Q84  11  
Q84  C8   C11  C  0  1  N  N  R  -3.745  22.445  253.407  -4.874   0.722  -0.019  C8   Q84  12  
Q84  C9   C12  C  0  1  N  N  N  -4.311  22.268  252.008  -6.246   0.063   0.133  C9   Q84  13  
Q84  N1   N2   N  0  1  N  N  N  -1.124  26.336  253.661  -0.006  -0.122  -0.154  N1   Q84  14  
Q84  N2   N3   N  0  1  N  N  N   0.454  24.554  253.704   1.048  -2.220   0.162  N2   Q84  15  
Q84  N3   N4   N  0  1  N  N  N   2.495  24.766  254.801   3.388  -2.466   0.131  N3   Q84  16  
Q84  O1   O1   O  0  1  N  N  N  -1.528  22.977  252.567  -3.999  -1.264  -1.081  O1   Q84  17  
Q84  O2   O2   O  0  1  N  N  N  -3.287  21.196  253.905  -4.661   1.633   1.061  O2   Q84  18  
Q84  O3   O3   O  0  1  N  N  N  -5.393  21.352  251.978  -7.268   1.053  -0.001  O3   Q84  19  
Q84  O4   O4   O  0  1  N  N  N   1.954  22.830  253.741   2.029  -4.168   0.461  O4   Q84  20  
Q84  O5   O5   O  0  1  N  N  N   3.050  26.648  255.950   4.696  -0.690  -0.204  O5   Q84  21  
Q84  H1   H1   H  0  1  N  N  N  -0.779  31.515  255.237   4.029   4.376   1.631  H1   Q84  22  
Q84  H2   H2   H  0  1  N  N  N  -0.509  30.143  254.109   5.342   3.264   1.174  H2   Q84  23  
Q84  H3   H3   H  0  1  N  N  N  -1.540  29.921  255.563   4.994   4.691   0.169  H3   Q84  24  
Q84  H6   H6   H  0  1  N  N  N   2.180  28.485  256.026   3.897   1.284   1.107  H6   Q84  25  
Q84  H8   H8   H  0  1  N  N  N  -1.170  25.045  252.032  -1.392  -1.220   0.973  H8   Q84  26  
Q84  H9   H9   H  0  1  N  N  N  -2.261  26.469  251.925  -1.446  -1.512  -0.782  H9   Q84  27  
Q84  H10  H10  H  0  1  N  N  N  -3.494  25.306  253.917  -2.288   1.065   0.620  H10  Q84  28  
Q84  H11  H11  H  0  1  N  N  N  -3.758  24.768  252.224  -2.342   0.773  -1.135  H11  Q84  29  
Q84  H12  H12  H  0  1  N  N  N  -2.209  23.479  254.449  -3.826  -0.895   0.945  H12  Q84  30  
Q84  H13  H13  H  0  1  N  N  N  -4.542  22.835  254.057  -4.834   1.264  -0.964  H13  Q84  31  
Q84  H14  H14  H  0  1  N  N  N  -3.514  21.896  251.348  -6.372  -0.696  -0.640  H14  Q84  32  
Q84  H15  H15  H  0  1  N  N  N  -4.663  23.244  251.643  -6.318  -0.404   1.115  H15  Q84  33  
Q84  H16  H16  H  0  1  N  N  N  -0.934  27.269  253.355   0.058   0.832  -0.315  H16  Q84  34  
Q84  H17  H17  H  0  1  N  N  N   3.393  24.385  255.022   4.157  -3.052   0.204  H17  Q84  35  
Q84  H18  H18  H  0  1  N  N  N  -1.273  22.099  252.824  -3.976  -0.851  -1.954  H18  Q84  36  
Q84  H19  H19  H  0  1  N  N  N  -2.935  21.313  254.779  -4.684   1.220   1.935  H19  Q84  37  
Q84  H20  H20  H  0  1  N  N  N  -5.716  21.271  251.088  -8.166   0.705   0.084  H20  Q84  38  
Q84  O6   O6   O  0  1  N  N  N   1.243  31.083  256.603   2.985   3.619  -0.945  O6   Q84  39  
Q84  H4   H4   H  0  1  N  N  N  -0.178  24.020  253.143   0.177  -2.636   0.258  H4   Q84  40  
#   #
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
Q84  O3   C9   SING  N  N   1  
Q84  C9   C8   SING  N  N   2  
Q84  O1   C7   SING  N  N   3  
Q84  C5   C6   SING  N  N   4  
Q84  C5   N1   SING  N  N   5  
Q84  C6   C7   SING  N  N   6  
Q84  C8   C7   SING  N  N   7  
Q84  C8   O2   SING  N  N   8  
Q84  N1   C4   SING  N  N   9  
Q84  N2   C10  SING  N  N  10  
Q84  N2   C4   SING  N  N  11  
Q84  O4   C10  DOUB  N  N  12  
Q84  C10  N3   SING  N  N  13  
Q84  C4   C3   DOUB  N  N  14  
Q84  N3   C11  SING  N  N  15  
Q84  C3   N    SING  N  N  16  
Q84  C3   C11  SING  N  N  17  
Q84  N    C2   DOUB  N  N  18  
Q84  C    C1   SING  N  N  19  
Q84  C11  O5   DOUB  N  N  20  
Q84  C2   C1   SING  N  N  21  
Q84  C    H1   SING  N  N  22  
Q84  C    H2   SING  N  N  23  
Q84  C    H3   SING  N  N  24  
Q84  C2   H6   SING  N  N  25  
Q84  C5   H8   SING  N  N  26  
Q84  C5   H9   SING  N  N  27  
Q84  C6   H10  SING  N  N  28  
Q84  C6   H11  SING  N  N  29  
Q84  C7   H12  SING  N  N  30  
Q84  C8   H13  SING  N  N  31  
Q84  C9   H14  SING  N  N  32  
Q84  C9   H15  SING  N  N  33  
Q84  N1   H16  SING  N  N  34  
Q84  N3   H17  SING  N  N  35  
Q84  O1   H18  SING  N  N  36  
Q84  O2   H19  SING  N  N  37  
Q84  O3   H20  SING  N  N  38  
Q84  C1   O6   DOUB  N  N  39  
Q84  N2   H4   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
Q84  SMILES            ACDLabs               12.01  "CC(=O)/C=N/C=1C(=O)NC(NC=1NCCC(C(O)CO)O)=O"  
Q84  InChI             InChI                 1.03   "InChI=1S/C12H18N4O6/c1-6(18)4-14-9-10(15-12(22)16-11(9)21)13-3-2-7(19)8(20)5-17/h4,7-8,17,19-20H,2-3,5H2,1H3,(H3,13,15,16,21,22)/b14-4+/t7-,8+/m0/s1"  
Q84  InChIKey          InChI                 1.03   FZDZNUDZZWQFOO-SSOFNSMFSA-N  
Q84  SMILES_CANONICAL  CACTVS                3.385  "CC(=O)C=NC1=C(NCC[C@H](O)[C@H](O)CO)NC(=O)NC1=O"  
Q84  SMILES            CACTVS                3.385  "CC(=O)C=NC1=C(NCC[CH](O)[CH](O)CO)NC(=O)NC1=O"  
Q84  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CC(=O)/C=N/C1=C(NC(=O)NC1=O)NCC[C@@H]([C@@H](CO)O)O"  
Q84  SMILES            "OpenEye OEToolkits"  2.0.7  "CC(=O)C=NC1=C(NC(=O)NC1=O)NCCC(C(CO)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
Q84  "SYSTEMATIC NAME"  ACDLabs               12.01  "1,2-dideoxy-1-({2,6-dioxo-5-[(E)-(2-oxopropylidene)amino]-1,2,3,6-tetrahydropyrimidin-4-yl}amino)-D-erythro-pentitol"  
Q84  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "5-[(~{E})-2-oxidanylidenepropylideneamino]-6-[[(3~{S},4~{R})-3,4,5-tris(oxidanyl)pentyl]amino]-1~{H}-pyrimidine-2,4-dione"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
Q84  "Create component"  2019-10-02  RCSB  
Q84  "Initial release"   2020-02-19  RCSB  
##
