data_1QD
#

_chem_comp.id                                   1QD
_chem_comp.name                                 "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-5-(5-iodanylisoquinolin-2-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen phosphate"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C24 H28 I N6 O13 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   1
_chem_comp.pdbx_initial_date                    2021-06-23
_chem_comp.pdbx_modified_date                   2022-03-18
_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                       797.364
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    1QD
_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       7NAG
_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
1QD  O10   O1   O  0  1  N  N  N  -34.576  28.703   8.334   1.363  -1.964   2.307  O10   1QD   1  
1QD  C13   C1   C  0  1  N  N  R  -35.761  29.999  11.614   5.322  -2.212  -0.074  C13   1QD   2  
1QD  C15   C2   C  0  1  N  N  R  -36.218  29.606  13.884   7.723  -2.623  -0.025  C15   1QD   3  
1QD  C16   C3   C  0  1  N  N  R  -34.865  30.302  13.677   7.335  -1.365  -0.842  C16   1QD   4  
1QD  C19   C4   C  0  1  Y  N  N  -35.718  32.495  14.670   8.215   0.723   0.269  C19   1QD   5  
1QD  C01   C5   C  0  1  N  N  R  -31.209  34.363   5.922  -4.315   2.793  -1.038  C01   1QD   6  
1QD  C02   C6   C  0  1  N  N  R  -30.062  33.488   5.405  -4.773   3.916  -0.072  C02   1QD   7  
1QD  C03   C7   C  0  1  N  N  S  -30.677  32.861   4.155  -3.426   4.563   0.334  C03   1QD   8  
1QD  C04   C8   C  0  1  N  N  R  -32.183  33.038   4.354  -2.378   3.475   0.032  C04   1QD   9  
1QD  C05   C9   C  0  1  N  N  N  -32.810  31.883   5.094  -1.610   3.125   1.308  C05   1QD  10  
1QD  C12   C10  C  0  1  N  N  N  -36.161  30.934  10.507   4.436  -2.068   1.165  C12   1QD  11  
1QD  C14   C11  C  0  1  N  N  S  -36.930  29.845  12.564   6.358  -3.331   0.149  C14   1QD  12  
1QD  C21   C12  C  0  1  Y  N  N  -33.898  33.079  15.700  10.094   1.021  -0.773  C21   1QD  13  
1QD  C22   C13  C  0  1  Y  N  N  -33.645  31.903  15.081   9.493  -0.128  -1.314  C22   1QD  14  
1QD  C24   C14  C  0  1  Y  N  N  -31.457  31.867  15.870  11.277  -0.366  -2.743  C24   1QD  15  
1QD  C26   C15  C  0  1  Y  N  N  -32.838  33.655  16.452  11.334   1.428  -1.293  C26   1QD  16  
1QD  C37   C16  C  0  1  Y  N  N  -32.763  34.173   7.882  -6.117   1.660  -2.123  C37   1QD  17  
1QD  C38   C17  C  0  1  Y  N  N  -33.005  34.120   9.304  -7.081   0.642  -2.200  C38   1QD  18  
1QD  C39   C18  C  0  1  Y  N  N  -31.934  34.130  10.205  -7.159  -0.301  -1.142  C39   1QD  19  
1QD  C40   C19  C  0  1  Y  N  N  -30.598  34.169   9.712  -6.263  -0.168  -0.065  C40   1QD  20  
1QD  C41   C20  C  0  1  Y  N  N  -30.437  34.205   8.313  -5.365   0.856  -0.085  C41   1QD  21  
1QD  C42   C21  C  0  1  Y  N  N  -32.192  34.089  11.616  -8.114  -1.326  -1.198  C42   1QD  22  
1QD  C43   C22  C  0  1  Y  N  N  -33.512  34.038  12.077  -8.955  -1.402  -2.268  C43   1QD  23  
1QD  C44   C23  C  0  1  Y  N  N  -34.599  34.056  11.185  -8.879  -0.477  -3.307  C44   1QD  24  
1QD  C45   C24  C  0  1  Y  N  N  -34.355  34.081   9.787  -7.963   0.531  -3.286  C45   1QD  25  
1QD  I46   I1   I  0  1  N  N  N  -30.572  34.090  12.965  -8.248  -2.730   0.351  I46   1QD  26  
1QD  N18   N1   N  0  1  Y  N  N  -34.776  31.549  14.450   8.312  -0.293  -0.635  N18   1QD  27  
1QD  N20   N2   N  0  1  Y  N  N  -35.202  33.461  15.432   9.260   1.495   0.184  N20   1QD  28  
1QD  N23   N3   N  0  1  Y  N  N  -32.409  31.274  15.158  10.115  -0.784  -2.288  N23   1QD  29  
1QD  N25   N4   N  0  1  Y  N  N  -31.662  33.015  16.504  11.879   0.709  -2.268  N25   1QD  30  
1QD  N27   N5   N  0  1  N  N  N  -33.084  34.893  17.131  11.973   2.553  -0.800  N27   1QD  31  
1QD  N36   N6   N  1  1  Y  N  N  -31.496  34.192   7.464  -5.310   1.720  -1.089  N36   1QD  32  
1QD  O06   O2   O  0  1  N  N  N  -34.223  32.186   5.237  -0.564   2.202   0.997  O06   1QD  33  
1QD  O08   O3   O  0  1  N  N  N  -34.860  30.969   7.117   1.404   0.513   1.427  O08   1QD  34  
1QD  O11   O4   O  0  1  N  N  N  -35.033  30.906   9.628   3.417  -1.099   0.912  O11   1QD  35  
1QD  O17   O5   O  0  1  N  N  N  -34.659  30.606  12.318   6.050  -0.993  -0.299  O17   1QD  36  
1QD  O28   O6   O  0  1  N  N  N  -36.031  28.207  14.095   8.634  -3.446  -0.758  O28   1QD  37  
1QD  O29   O7   O  0  1  N  N  N  -37.703  28.713  12.176   6.199  -4.361  -0.828  O29   1QD  38  
1QD  O30   O8   O  0  1  N  N  N  -36.772  29.868   8.069   2.969  -0.260   3.250  O30   1QD  39  
1QD  O31   O9   O  0  1  N  N  N  -36.627  31.554   5.360   1.344   2.813   2.699  O31   1QD  40  
1QD  O32   O10  O  0  1  N  N  N  -34.949  29.796   4.858  -0.329   0.990   3.198  O32   1QD  41  
1QD  O33   O11  O  0  1  N  N  N  -32.375  34.222   5.166  -3.085   2.319  -0.449  O33   1QD  42  
1QD  O34   O12  O  0  1  N  N  N  -30.202  33.475   2.957  -3.174   5.732  -0.449  O34   1QD  43  
1QD  O35   O13  O  0  1  N  N  N  -28.968  34.387   5.165  -5.610   4.858  -0.746  O35   1QD  44  
1QD  P07   P1   P  0  1  N  N  N  -35.253  31.025   5.592   0.447   1.616   2.104  P07   1QD  45  
1QD  P09   P2   P  0  1  N  N  N  -35.318  30.036   8.268   2.303  -0.693   2.001  P09   1QD  46  
1QD  H1    H1   H  0  1  N  N  N  -35.196  27.990   8.233   0.894  -2.302   1.532  H1    1QD  47  
1QD  H131  H2   H  0  0  N  N  N  -35.477  29.020  11.201   4.709  -2.443  -0.945  H131  1QD  48  
1QD  H151  H3   H  0  0  N  N  N  -36.768  30.077  14.712   8.145  -2.345   0.941  H151  1QD  49  
1QD  H161  H4   H  0  0  N  N  N  -34.077  29.617  14.023   7.251  -1.606  -1.902  H161  1QD  50  
1QD  H2    H5   H  0  1  N  N  N  -36.728  32.472  14.289   7.391   0.868   0.952  H2    1QD  51  
1QD  H011  H6   H  0  0  N  N  N  -30.867  35.402   5.805  -4.133   3.195  -2.035  H011  1QD  52  
1QD  H021  H7   H  0  0  N  N  N  -29.805  32.713   6.142  -5.281   3.498   0.797  H021  1QD  53  
1QD  H031  H8   H  0  0  N  N  N  -30.445  31.786   4.147  -3.428   4.808   1.396  H031  1QD  54  
1QD  H041  H9   H  0  0  N  N  N  -32.669  33.159   3.375  -1.685   3.830  -0.731  H041  1QD  55  
1QD  H3    H10  H  0  1  N  N  N  -32.679  30.953   4.522  -1.180   4.031   1.735  H3    1QD  56  
1QD  H4    H11  H  0  1  N  N  N  -32.345  31.773   6.085  -2.291   2.672   2.029  H4    1QD  57  
1QD  H5    H12  H  0  1  N  N  N  -36.335  31.949  10.893   3.975  -3.028   1.396  H5    1QD  58  
1QD  H6    H13  H  0  1  N  N  N  -37.067  30.575   9.997   5.044  -1.744   2.010  H6    1QD  59  
1QD  H141  H14  H  0  0  N  N  N  -37.529  30.767  12.603   6.266  -3.740   1.155  H141  1QD  60  
1QD  H7    H15  H  0  1  N  N  N  -30.485  31.400  15.935  11.755  -0.922  -3.536  H7    1QD  61  
1QD  H8    H16  H  0  1  N  N  N  -33.582  34.197   7.178  -6.037   2.390  -2.915  H8    1QD  62  
1QD  H9    H17  H  0  1  N  N  N  -29.749  34.171  10.379  -6.288  -0.863   0.761  H9    1QD  63  
1QD  H10   H18  H  0  1  N  N  N  -29.439  34.244   7.903  -4.675   0.964   0.738  H10   1QD  64  
1QD  H11   H19  H  0  1  N  N  N  -33.700  33.984  13.139  -9.690  -2.192  -2.312  H11   1QD  65  
1QD  H12   H20  H  0  1  N  N  N  -35.612  34.051  11.561  -9.557  -0.561  -4.144  H12   1QD  66  
1QD  H13   H21  H  0  1  N  N  N  -35.181  34.071   9.091  -7.917   1.241  -4.099  H13   1QD  67  
1QD  H14   H22  H  0  1  N  N  N  -32.260  35.173  17.623  11.565   3.070  -0.089  H14   1QD  68  
1QD  H15   H23  H  0  1  N  N  N  -33.329  35.596  16.464  12.830   2.823  -1.167  H15   1QD  69  
1QD  H16   H24  H  0  1  N  N  N  -35.585  28.068  14.922   8.871  -4.268  -0.307  H16   1QD  70  
1QD  H17   H25  H  0  1  N  N  N  -38.438  28.612  12.769   6.826  -5.091  -0.734  H17   1QD  71  
1QD  H18   H26  H  0  1  N  N  N  -37.088  30.985   4.755   1.880   3.269   2.036  H18   1QD  72  
1QD  H19   H27  H  0  1  N  N  N  -29.265  33.337   2.880  -3.805   6.450  -0.299  H19   1QD  73  
1QD  H20   H28  H  0  1  N  N  N  -28.650  34.727   5.993  -5.922   5.580  -0.183  H20   1QD  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
1QD  O34  C03   SING  N  N   1  
1QD  C03  C04   SING  N  N   2  
1QD  C03  C02   SING  N  N   3  
1QD  C04  C05   SING  N  N   4  
1QD  C04  O33   SING  N  N   5  
1QD  O32  P07   DOUB  N  N   6  
1QD  C05  O06   SING  N  N   7  
1QD  O35  C02   SING  N  N   8  
1QD  O33  C01   SING  N  N   9  
1QD  O06  P07   SING  N  N  10  
1QD  O31  P07   SING  N  N  11  
1QD  C02  C01   SING  N  N  12  
1QD  P07  O08   SING  N  N  13  
1QD  C01  N36   SING  N  N  14  
1QD  O08  P09   SING  N  N  15  
1QD  N36  C37   DOUB  Y  N  16  
1QD  N36  C41   SING  Y  N  17  
1QD  C37  C38   SING  Y  N  18  
1QD  O30  P09   DOUB  N  N  19  
1QD  P09  O10   SING  N  N  20  
1QD  P09  O11   SING  N  N  21  
1QD  C41  C40   DOUB  Y  N  22  
1QD  C38  C45   SING  Y  N  23  
1QD  C38  C39   DOUB  Y  N  24  
1QD  O11  C12   SING  N  N  25  
1QD  C40  C39   SING  Y  N  26  
1QD  C45  C44   DOUB  Y  N  27  
1QD  C39  C42   SING  Y  N  28  
1QD  C12  C13   SING  N  N  29  
1QD  C44  C43   SING  Y  N  30  
1QD  C13  O17   SING  N  N  31  
1QD  C13  C14   SING  N  N  32  
1QD  C42  C43   DOUB  Y  N  33  
1QD  C42  I46   SING  N  N  34  
1QD  O29  C14   SING  N  N  35  
1QD  O17  C16   SING  N  N  36  
1QD  C14  C15   SING  N  N  37  
1QD  C16  C15   SING  N  N  38  
1QD  C16  N18   SING  N  N  39  
1QD  C15  O28   SING  N  N  40  
1QD  N18  C19   SING  Y  N  41  
1QD  N18  C22   SING  Y  N  42  
1QD  C19  N20   DOUB  Y  N  43  
1QD  C22  N23   DOUB  Y  N  44  
1QD  C22  C21   SING  Y  N  45  
1QD  N23  C24   SING  Y  N  46  
1QD  N20  C21   SING  Y  N  47  
1QD  C21  C26   DOUB  Y  N  48  
1QD  C24  N25   DOUB  Y  N  49  
1QD  C26  N25   SING  Y  N  50  
1QD  C26  N27   SING  N  N  51  
1QD  O10  H1    SING  N  N  52  
1QD  C13  H131  SING  N  N  53  
1QD  C15  H151  SING  N  N  54  
1QD  C16  H161  SING  N  N  55  
1QD  C19  H2    SING  N  N  56  
1QD  C01  H011  SING  N  N  57  
1QD  C02  H021  SING  N  N  58  
1QD  C03  H031  SING  N  N  59  
1QD  C04  H041  SING  N  N  60  
1QD  C05  H3    SING  N  N  61  
1QD  C05  H4    SING  N  N  62  
1QD  C12  H5    SING  N  N  63  
1QD  C12  H6    SING  N  N  64  
1QD  C14  H141  SING  N  N  65  
1QD  C24  H7    SING  N  N  66  
1QD  C37  H8    SING  N  N  67  
1QD  C40  H9    SING  N  N  68  
1QD  C41  H10   SING  N  N  69  
1QD  C43  H11   SING  N  N  70  
1QD  C44  H12   SING  N  N  71  
1QD  C45  H13   SING  N  N  72  
1QD  N27  H14   SING  N  N  73  
1QD  N27  H15   SING  N  N  74  
1QD  O28  H16   SING  N  N  75  
1QD  O29  H17   SING  N  N  76  
1QD  O31  H18   SING  N  N  77  
1QD  O34  H19   SING  N  N  78  
1QD  O35  H20   SING  N  N  79  
#   #
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
1QD  SMILES            ACDLabs               12.01  "Ic1cccc2c[n+](ccc21)C1OC(COP(=O)(O)OP(=O)(O)OCC2OC(n3cnc4c(N)ncnc43)C(O)C2O)C(O)C1O"  
1QD  InChI             InChI                 1.03   "InChI=1S/C24H27IN6O13P2/c25-13-3-1-2-11-6-30(5-4-12(11)13)23-19(34)17(32)14(42-23)7-40-45(36,37)44-46(38,39)41-8-15-18(33)20(35)24(43-15)31-10-29-16-21(26)27-9-28-22(16)31/h1-6,9-10,14-15,17-20,23-24,32-35H,7-8H2,(H3-,26,27,28,36,37,38,39)/p+1/t14-,15-,17-,18-,19-,20-,23-,24-/m1/s1"  
1QD  InChIKey          InChI                 1.03   XFPQIWOCIZLCML-PAXFUWABSA-O  
1QD  SMILES_CANONICAL  CACTVS                3.385  "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@H]4O[C@H]([C@H](O)[C@@H]4O)[n+]5ccc6c(I)cccc6c5)[C@@H](O)[C@H]3O"  
1QD  SMILES            CACTVS                3.385  "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH]([CH](O)[CH]4O)[n+]5ccc6c(I)cccc6c5)[CH](O)[CH]3O"  
1QD  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1cc2c[n+](ccc2c(c1)I)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OC[C@@H]4[C@H]([C@H]([C@@H](O4)n5cnc6c5ncnc6N)O)O)O)O"  
1QD  SMILES            "OpenEye OEToolkits"  2.0.7  "c1cc2c[n+](ccc2c(c1)I)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)n5cnc6c5ncnc6N)O)O)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
1QD  "SYSTEMATIC NAME"  ACDLabs               12.01  "2-[(2R,3R,4S,5R)-5-({[(S)-{[(S)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-3,4-dihydroxyoxolan-2-yl]-5-iodoisoquinolin-2-ium (non-preferred name)"  
1QD  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-5-(5-iodanylisoquinolin-2-ium-2-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen 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
1QD  "Create component"      2021-06-23  RCSB  
1QD  "Modify aromatic_flag"  2022-02-15  RCSB  
1QD  "Modify aromatic_flag"  2022-03-03  RCSB  
1QD  "Initial release"       2022-03-23  RCSB  
##
