data_LR7
#

_chem_comp.id                                   LR7
_chem_comp.name                                 "[[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{R},4~{R},5~{R},6~{R})-3-(hex-5-ynoylamino)-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl] hydrogen phosphate"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C21 H31 N3 O17 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2019-03-12
_chem_comp.pdbx_modified_date                   2020-01-24
_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                       659.428
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    LR7
_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       6NQT
_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
LR7  O4     O1   O  0  1  N  N  N   -7.953  39.752  -54.656    8.655  -3.147  -1.497  O4     LR7   1  
LR7  C4     C1   C  0  1  N  N  N   -8.501  40.771  -54.215    8.040  -2.245  -0.956  C4     LR7   2  
LR7  N3     N1   N  0  1  N  N  N   -8.228  42.065  -54.788    8.173  -2.029   0.368  N3     LR7   3  
LR7  C2     C2   C  0  1  N  N  N   -8.898  43.197  -54.217    7.493  -1.033   0.965  C2     LR7   4  
LR7  O2     O2   O  0  1  N  N  N   -8.684  44.304  -54.710    7.623  -0.850   2.160  O2     LR7   5  
LR7  C5     C3   C  0  1  N  N  N   -9.410  40.625  -53.114    7.183  -1.411  -1.714  C5     LR7   6  
LR7  C6     C4   C  0  1  N  N  N  -10.004  41.690  -52.602    6.513  -0.418  -1.090  C6     LR7   7  
LR7  N1     N2   N  0  1  N  N  N   -9.785  43.015  -53.136    6.672  -0.235   0.257  N1     LR7   8  
LR7  C1B    C5   C  0  1  N  N  R  -10.467  44.164  -52.528    5.945   0.842   0.934  C1B    LR7   9  
LR7  C2B    C6   C  0  1  N  N  R  -11.986  44.044  -52.403    6.417   2.226   0.420  C2B    LR7  10  
LR7  "O2'"  O3   O  0  1  N  N  N  -12.694  44.597  -53.528    7.562   2.676   1.146  "O2'"  LR7  11  
LR7  C3B    C7   C  0  1  N  N  S  -12.254  44.780  -51.107    5.187   3.118   0.717  C3B    LR7  12  
LR7  O3B    O4   O  0  1  N  N  N  -12.500  46.163  -51.365    5.370   3.828   1.944  O3B    LR7  13  
LR7  O4B    O5   O  0  1  N  N  N   -9.943  44.329  -51.205    4.545   0.810   0.581  O4B    LR7  14  
LR7  C4B    C8   C  0  1  N  N  R  -10.988  44.605  -50.273    4.018   2.122   0.840  C4B    LR7  15  
LR7  C5B    C9   C  0  1  N  N  N  -11.041  43.494  -49.211    2.937   2.460  -0.189  C5B    LR7  16  
LR7  O5B    O6   O  0  1  N  N  N  -11.820  42.356  -49.588    1.808   1.606   0.008  O5B    LR7  17  
LR7  PA     P1   P  0  1  N  N  N  -13.233  42.010  -48.904    0.481   1.684  -0.899  PA     LR7  18  
LR7  O1A    O7   O  0  1  N  N  N  -13.865  43.268  -48.339   -0.243   3.104  -0.672  O1A    LR7  19  
LR7  O2A    O8   O  0  1  N  N  N  -14.069  41.389  -49.988    0.849   1.541  -2.326  O2A    LR7  20  
LR7  O3A    O9   O  0  1  N  N  N  -13.082  40.888  -47.769   -0.524   0.497  -0.483  O3A    LR7  21  
LR7  PB     P2   P  0  1  N  N  N  -13.514  41.115  -46.243   -1.764  -0.226  -1.213  PB     LR7  22  
LR7  O1B    O10  O  0  1  N  N  N  -14.773  41.946  -46.161   -2.573   0.786  -1.929  O1B    LR7  23  
LR7  O2B    O11  O  0  1  N  N  N  -13.803  39.720  -45.776   -1.210  -1.312  -2.264  O2B    LR7  24  
LR7  "O1'"  O12  O  0  1  N  N  N  -12.211  41.798  -45.511   -2.679  -0.963  -0.112  "O1'"  LR7  25  
LR7  "C1'"  C10  C  0  1  N  N  R  -11.594  41.616  -44.184   -3.914  -1.607  -0.431  "C1'"  LR7  26  
LR7  "O5'"  O13  O  0  1  N  N  N  -10.367  40.863  -44.060   -3.666  -2.976  -0.761  "O5'"  LR7  27  
LR7  "C5'"  C11  C  0  1  N  N  R   -9.420  41.094  -45.112   -3.034  -3.722   0.281  "C5'"  LR7  28  
LR7  "C6'"  C12  C  0  1  N  N  N   -8.287  40.106  -44.913   -2.794  -5.157  -0.193  "C6'"  LR7  29  
LR7  "O6'"  O14  O  0  1  N  N  N   -7.180  40.461  -45.728   -1.859  -5.151  -1.274  "O6'"  LR7  30  
LR7  "C4'"  C13  C  0  1  N  N  R   -8.981  42.549  -45.196   -3.938  -3.737   1.517  "C4'"  LR7  31  
LR7  "O4'"  O15  O  0  1  N  N  N   -7.785  42.738  -44.444   -5.168  -4.392   1.201  "O4'"  LR7  32  
LR7  "C3'"  C14  C  0  1  N  N  R  -10.064  43.513  -44.717   -4.223  -2.295   1.949  "C3'"  LR7  33  
LR7  "O3'"  O16  O  0  1  N  N  N   -9.327  44.514  -44.078   -5.125  -2.297   3.057  "O3'"  LR7  34  
LR7  "C2'"  C15  C  0  1  N  N  R  -11.093  42.964  -43.717   -4.853  -1.537   0.776  "C2'"  LR7  35  
LR7  "N2'"  N3   N  0  1  N  N  N  -12.264  43.822  -43.754   -5.062  -0.137   1.153  "N2'"  LR7  36  
LR7  "C7'"  C16  C  0  1  N  N  N  -12.624  44.588  -42.664   -6.011   0.593   0.536  "C7'"  LR7  37  
LR7  "O7'"  O17  O  0  1  N  N  N  -11.989  44.612  -41.625   -6.694   0.091  -0.332  "O7'"  LR7  38  
LR7  "C8'"  C17  C  0  1  N  N  N  -13.867  45.414  -42.846   -6.226   2.033   0.924  "C8'"  LR7  39  
LR7  C40    C18  C  0  1  N  N  N  -13.729  46.738  -42.106   -7.354   2.627   0.078  C40    LR7  40  
LR7  C41    C19  C  0  1  N  N  N  -14.212  47.900  -42.964   -7.572   4.089   0.472  C41    LR7  41  
LR7  C42    C20  C  0  1  N  N  N  -14.666  48.983  -42.089   -8.657   4.661  -0.343  C42    LR7  42  
LR7  C43    C21  C  0  1  N  N  N  -15.074  49.817  -41.227   -9.522   5.116  -0.992  C43    LR7  43  
LR7  H1     H1   H  0  1  N  N  N   -7.595  42.170  -55.555    8.761  -2.595   0.893  H1     LR7  44  
LR7  H2     H2   H  0  1  N  N  N   -9.609  39.646  -52.704    7.068  -1.565  -2.776  H2     LR7  45  
LR7  H3     H3   H  0  1  N  N  N  -10.671  41.566  -51.762    5.855   0.229  -1.651  H3     LR7  46  
LR7  H4     H4   H  0  1  N  N  N  -10.244  45.063  -53.122    6.073   0.770   2.014  H4     LR7  47  
LR7  H5     H5   H  0  1  N  N  N  -12.250  42.984  -52.275    6.624   2.193  -0.650  H5     LR7  48  
LR7  H6     H6   H  0  1  N  N  N  -13.629  44.495  -53.396    7.894   3.538   0.860  H6     LR7  49  
LR7  H7     H7   H  0  1  N  N  N  -13.106  44.318  -50.586    5.012   3.813  -0.104  H7     LR7  50  
LR7  H8     H8   H  0  1  N  N  N  -12.667  46.614  -50.545    6.129   4.427   1.943  H8     LR7  51  
LR7  H9     H9   H  0  1  N  N  N  -10.781  45.556  -49.761    3.601   2.162   1.846  H9     LR7  52  
LR7  H10    H10  H  0  1  N  N  N  -10.013  43.157  -49.013    2.632   3.499  -0.067  H10    LR7  53  
LR7  H11    H11  H  0  1  N  N  N  -11.472  43.917  -48.291    3.333   2.313  -1.194  H11    LR7  54  
LR7  H12    H12  H  0  1  N  N  N  -14.688  43.436  -48.782   -0.512   3.266   0.243  H12    LR7  55  
LR7  H13    H13  H  0  1  N  N  N  -14.717  39.652  -45.527   -0.670  -2.007  -1.863  H13    LR7  56  
LR7  H14    H14  H  0  1  N  N  N  -12.344  41.241  -43.472   -4.376  -1.106  -1.281  H14    LR7  57  
LR7  H15    H15  H  0  1  N  N  N   -9.903  40.846  -46.069   -2.081  -3.258   0.534  H15    LR7  58  
LR7  H16    H16  H  0  1  N  N  N   -8.631  39.098  -45.187   -2.394  -5.749   0.630  H16    LR7  59  
LR7  H17    H17  H  0  1  N  N  N   -7.979  40.114  -43.857   -3.736  -5.591  -0.529  H17    LR7  60  
LR7  H18    H18  H  0  1  N  N  N   -6.476  39.837  -45.596   -1.659  -6.030  -1.625  H18    LR7  61  
LR7  H19    H19  H  0  1  N  N  N   -8.777  42.776  -46.253   -3.439  -4.268   2.327  H19    LR7  62  
LR7  H20    H20  H  0  1  N  N  N   -7.516  43.647  -44.500   -5.062  -5.310   0.914  H20    LR7  63  
LR7  H21    H21  H  0  1  N  N  N  -10.597  43.916  -45.591   -3.291  -1.810   2.239  H21    LR7  64  
LR7  H22    H22  H  0  1  N  N  N   -9.918  45.175  -43.738   -4.793  -2.767   3.834  H22    LR7  65  
LR7  H23    H23  H  0  1  N  N  N  -10.660  42.899  -42.708   -5.810  -1.993   0.520  H23    LR7  66  
LR7  H24    H24  H  0  1  N  N  N  -12.820  43.858  -44.585   -4.516   0.264   1.848  H24    LR7  67  
LR7  H25    H25  H  0  1  N  N  N  -14.020  45.610  -43.918   -6.495   2.089   1.979  H25    LR7  68  
LR7  H26    H26  H  0  1  N  N  N  -14.732  44.863  -42.447   -5.308   2.596   0.753  H26    LR7  69  
LR7  H27    H27  H  0  1  N  N  N  -12.671  46.897  -41.849   -7.084   2.571  -0.977  H27    LR7  70  
LR7  H28    H28  H  0  1  N  N  N  -14.329  46.699  -41.185   -8.271   2.064   0.249  H28    LR7  71  
LR7  H29    H29  H  0  1  N  N  N  -13.387  48.259  -43.597   -7.841   4.145   1.527  H29    LR7  72  
LR7  H30    H30  H  0  1  N  N  N  -15.045  47.567  -43.601   -6.654   4.652   0.301  H30    LR7  73  
LR7  H31    H31  H  0  1  N  N  N  -15.415  50.515  -40.506  -10.296   5.524  -1.573  H31    LR7  74  
#   #
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
LR7  N3     C2     SING  N  N   1  
LR7  N3     C4     SING  N  N   2  
LR7  O2     C2     DOUB  N  N   3  
LR7  O4     C4     DOUB  N  N   4  
LR7  C2     N1     SING  N  N   5  
LR7  C4     C5     SING  N  N   6  
LR7  "O2'"  C2B    SING  N  N   7  
LR7  N1     C6     SING  N  N   8  
LR7  N1     C1B    SING  N  N   9  
LR7  C5     C6     DOUB  N  N  10  
LR7  C1B    C2B    SING  N  N  11  
LR7  C1B    O4B    SING  N  N  12  
LR7  C2B    C3B    SING  N  N  13  
LR7  O3B    C3B    SING  N  N  14  
LR7  O4B    C4B    SING  N  N  15  
LR7  C3B    C4B    SING  N  N  16  
LR7  C4B    C5B    SING  N  N  17  
LR7  O2A    PA     DOUB  N  N  18  
LR7  O5B    C5B    SING  N  N  19  
LR7  O5B    PA     SING  N  N  20  
LR7  PA     O1A    SING  N  N  21  
LR7  PA     O3A    SING  N  N  22  
LR7  O3A    PB     SING  N  N  23  
LR7  PB     O1B    DOUB  N  N  24  
LR7  PB     O2B    SING  N  N  25  
LR7  PB     "O1'"  SING  N  N  26  
LR7  "O6'"  "C6'"  SING  N  N  27  
LR7  "O1'"  "C1'"  SING  N  N  28  
LR7  "C4'"  "C5'"  SING  N  N  29  
LR7  "C4'"  "C3'"  SING  N  N  30  
LR7  "C4'"  "O4'"  SING  N  N  31  
LR7  "C5'"  "C6'"  SING  N  N  32  
LR7  "C5'"  "O5'"  SING  N  N  33  
LR7  "C3'"  "O3'"  SING  N  N  34  
LR7  "C3'"  "C2'"  SING  N  N  35  
LR7  "C1'"  "O5'"  SING  N  N  36  
LR7  "C1'"  "C2'"  SING  N  N  37  
LR7  "N2'"  "C2'"  SING  N  N  38  
LR7  "N2'"  "C7'"  SING  N  N  39  
LR7  C41    C40    SING  N  N  40  
LR7  C41    C42    SING  N  N  41  
LR7  "C8'"  "C7'"  SING  N  N  42  
LR7  "C8'"  C40    SING  N  N  43  
LR7  "C7'"  "O7'"  DOUB  N  N  44  
LR7  C42    C43    TRIP  N  N  45  
LR7  N3     H1     SING  N  N  46  
LR7  C5     H2     SING  N  N  47  
LR7  C6     H3     SING  N  N  48  
LR7  C1B    H4     SING  N  N  49  
LR7  C2B    H5     SING  N  N  50  
LR7  "O2'"  H6     SING  N  N  51  
LR7  C3B    H7     SING  N  N  52  
LR7  O3B    H8     SING  N  N  53  
LR7  C4B    H9     SING  N  N  54  
LR7  C5B    H10    SING  N  N  55  
LR7  C5B    H11    SING  N  N  56  
LR7  O1A    H12    SING  N  N  57  
LR7  O2B    H13    SING  N  N  58  
LR7  "C1'"  H14    SING  N  N  59  
LR7  "C5'"  H15    SING  N  N  60  
LR7  "C6'"  H16    SING  N  N  61  
LR7  "C6'"  H17    SING  N  N  62  
LR7  "O6'"  H18    SING  N  N  63  
LR7  "C4'"  H19    SING  N  N  64  
LR7  "O4'"  H20    SING  N  N  65  
LR7  "C3'"  H21    SING  N  N  66  
LR7  "O3'"  H22    SING  N  N  67  
LR7  "C2'"  H23    SING  N  N  68  
LR7  "N2'"  H24    SING  N  N  69  
LR7  "C8'"  H25    SING  N  N  70  
LR7  "C8'"  H26    SING  N  N  71  
LR7  C40    H27    SING  N  N  72  
LR7  C40    H28    SING  N  N  73  
LR7  C41    H29    SING  N  N  74  
LR7  C41    H30    SING  N  N  75  
LR7  C43    H31    SING  N  N  76  
#   #
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
LR7  SMILES            ACDLabs               12.01  "O=C1C=CN(C(N1)=O)C2C(C(C(O2)COP(O)(OP(=O)(O)OC3OC(CO)C(C(O)C3NC(=O)CCCC#C)O)=O)O)O"  
LR7  InChI             InChI                 1.03   "InChI=1S/C21H31N3O17P2/c1-2-3-4-5-12(26)22-14-17(30)15(28)10(8-25)39-20(14)40-43(35,36)41-42(33,34)37-9-11-16(29)18(31)19(38-11)24-7-6-13(27)23-21(24)32/h1,6-7,10-11,14-20,25,28-31H,3-5,8-9H2,(H,22,26)(H,33,34)(H,35,36)(H,23,27,32)/t10-,11-,14-,15+,16-,17-,18-,19-,20-/m1/s1"  
LR7  InChIKey          InChI                 1.03   SPUYDPWWABYYLH-SSBRDYMUSA-N  
LR7  SMILES_CANONICAL  CACTVS                3.385  "OC[C@H]1O[C@H](O[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O)[C@H](NC(=O)CCCC#C)[C@@H](O)[C@H]1O"  
LR7  SMILES            CACTVS                3.385  "OC[CH]1O[CH](O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O)[CH](NC(=O)CCCC#C)[CH](O)[CH]1O"  
LR7  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "C#CCCCC(=O)N[C@@H]1[C@H]([C@H]([C@H](O[C@@H]1OP(=O)(O)OP(=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=O)NC3=O)O)O)CO)O)O"  
LR7  SMILES            "OpenEye OEToolkits"  2.0.7  "C#CCCCC(=O)NC1C(C(C(OC1OP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)N3C=CC(=O)NC3=O)O)O)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
LR7  "SYSTEMATIC NAME"  ACDLabs               12.01  "[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl (2R,3R,4R,5R,6R)-3-(hex-5-ynoylamino)-4,5-dihydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-2-yl dihydrogen diphosphate (non-preferred name)"  
LR7  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "[[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{R},4~{R},5~{R},6~{R})-3-(hex-5-ynoylamino)-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl] hydrogen phosphate"  
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loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
LR7  "Create component"  2019-03-12  RCSB  
LR7  "Initial release"   2020-01-29  RCSB  
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