data_J2A
#

_chem_comp.id                                   J2A
_chem_comp.name                                 "(2S,5R,7R,8R,10R,12aR,14R,15R,15aS,16R)-7-(2-amino-6-oxo-3,6-dihydro-9H-purin-9-yl)-14-(6-amino-9H-purin-9-yl)-15,16-dihydroxy-2,10-disulfanyloctahydro-2H,10H,12H-5,8-methano-2lambda~5~,10lambda~5~-furo[3,2-l][1,3,6,9,11,2,10]pentaoxadiphosphacyclotetradecine-2,10-dione"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C20 H24 N10 O11 P2 S2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "nonhydrolyzable phosphorothioate analog of 2'3' cyclic GMP-AMP"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2018-08-03
_chem_comp.pdbx_modified_date                   2021-03-01
_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                       706.542
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    J2A
_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       6EA8
_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
J2A  C27  C1   C  0  1  N  N  S  -16.490  16.413  -34.766   2.519  -0.905   0.407  C27  J2A   1  
J2A  C30  C2   C  0  1  N  N  R  -15.566  18.336  -35.619   4.638  -0.062  -0.414  C30  J2A   2  
J2A  C32  C3   C  0  1  Y  N  N  -14.891  19.799  -37.449   7.007   0.519   0.256  C32  J2A   3  
J2A  C34  C4   C  0  1  Y  N  N  -16.113  21.089  -38.934   9.002  -0.600   0.482  C34  J2A   4  
J2A  C40  C5   C  0  1  Y  N  N  -13.252  18.832  -36.377   5.559   2.182   0.276  C40  J2A   5  
J2A  C38  C6   C  0  1  Y  N  N  -13.723  20.204  -38.017   7.641   1.707   0.655  C38  J2A   6  
J2A  C10  C7   C  0  1  Y  N  N  -16.760  10.662  -33.219  -6.377   0.180   0.265  C10  J2A   7  
J2A  C15  C8   C  0  1  N  N  N  -15.403   9.142  -34.686  -8.531   0.512   1.384  C15  J2A   8  
J2A  C02  C9   C  0  1  N  N  R  -18.462  14.078  -31.810  -2.126  -0.702   0.809  C02  J2A   9  
J2A  C03  C10  C  0  1  N  N  R  -17.322  13.169  -31.624  -3.095   0.306   0.146  C03  J2A  10  
J2A  C08  C11  C  0  1  N  N  R  -17.967  11.844  -31.424  -4.127  -0.640  -0.516  C08  J2A  11  
J2A  C12  C12  C  0  1  N  N  N  -16.503  11.100  -35.730  -7.825   1.981  -0.264  C12  J2A  12  
J2A  C17  C13  C  0  1  Y  N  N  -15.979   9.547  -33.322  -7.294  -0.257   1.213  C17  J2A  13  
J2A  C19  C14  C  0  1  Y  N  N  -16.598   9.775  -31.240  -5.623  -1.631   1.255  C19  J2A  14  
J2A  C21  C15  C  0  1  N  N  R  -19.564  13.247  -32.447  -2.153  -1.842  -0.240  C21  J2A  15  
J2A  C22  C16  C  0  1  N  N  N  -19.877  13.566  -33.905  -1.597  -3.125   0.348  C22  J2A  16  
J2A  C28  C17  C  0  1  N  N  R  -15.719  16.891  -35.924   4.007  -0.770   0.795  C28  J2A  17  
J2A  C36  C18  C  0  1  Y  N  N  -13.805  21.111  -39.116   9.012   1.658   0.961  C36  J2A  18  
J2A  C42  C19  C  0  1  N  N  R  -15.984  17.284  -33.638   2.318   0.112  -0.724  C42  J2A  19  
J2A  C43  C20  C  0  1  N  N  N  -15.104  16.471  -32.748   1.383   1.235  -0.271  C43  J2A  20  
J2A  N09  N1   N  0  1  Y  N  N  -17.138  10.803  -31.934  -5.335  -0.694   0.306  N09  J2A  21  
J2A  N11  N2   N  0  1  N  N  N  -17.049  11.480  -34.434  -6.663   1.307  -0.463  N11  J2A  22  
J2A  N13  N3   N  0  1  N  N  N  -16.797  11.905  -36.899  -8.073   3.102  -1.010  N13  J2A  23  
J2A  N14  N4   N  0  1  N  N  N  -15.681   9.928  -35.842  -8.722   1.600   0.621  N14  J2A  24  
J2A  N18  N5   N  0  1  Y  N  N  -15.884   9.007  -32.103  -6.782  -1.369   1.789  N18  J2A  25  
J2A  N31  N6   N  0  1  Y  N  N  -14.582  18.953  -36.437   5.696   0.849   0.024  N31  J2A  26  
J2A  N33  N7   N  0  1  Y  N  N  -16.088  20.252  -37.920   7.719  -0.601   0.187  N33  J2A  27  
J2A  N35  N8   N  0  1  Y  N  N  -15.003  21.508  -39.520   9.642   0.493   0.858  N35  J2A  28  
J2A  N37  N9   N  0  1  N  N  N  -12.620  21.599  -39.793   9.690   2.797   1.359  N37  J2A  29  
J2A  N39  N10  N  0  1  Y  N  N  -12.718  19.593  -37.345   6.701   2.684   0.646  N39  J2A  30  
J2A  O01  O1   O  0  1  N  N  N  -18.907  14.518  -30.539  -0.819  -0.180   0.973  O01  J2A  31  
J2A  O04  O2   O  0  1  N  N  N  -16.476  13.579  -30.523  -2.429   1.050  -0.869  O04  J2A  32  
J2A  O07  O3   O  0  1  N  N  N  -14.422  13.994  -31.755  -1.080   2.416   0.774  O07  J2A  33  
J2A  O16  O4   O  0  1  N  N  N  -14.726   8.177  -34.794  -9.370   0.170   2.203  O16  J2A  34  
J2A  O20  O5   O  0  1  N  N  N  -19.199  11.872  -32.206  -3.542  -1.949  -0.602  O20  J2A  35  
J2A  O23  O6   O  0  1  N  N  N  -18.783  13.962  -34.706  -0.193  -2.950   0.590  O23  J2A  36  
J2A  O26  O7   O  0  1  N  N  N  -17.899  16.594  -34.899   2.269  -2.239  -0.032  O26  J2A  37  
J2A  O29  O8   O  0  1  N  N  N  -16.417  16.722  -37.158   4.592  -2.062   0.963  O29  J2A  38  
J2A  O41  O9   O  0  1  N  N  N  -15.231  18.356  -34.213   3.595   0.665  -1.060  O41  J2A  39  
J2A  O44  O10  O  0  1  N  N  N  -15.941  15.894  -31.803   0.190   1.219  -1.055  O44  J2A  40  
J2A  O45  O11  O  0  1  N  N  N  -20.190  15.852  -35.513   0.337  -1.796  -1.596  O45  J2A  41  
J2A  P05  P1   P  0  1  N  N  R  -15.318  14.714  -30.861  -1.156   2.004  -0.649  P05  J2A  42  
J2A  P24  P2   P  0  1  N  N  S  -18.811  15.391  -35.562   0.867  -2.768  -0.609  P24  J2A  43  
J2A  S06  S1   S  0  1  N  N  N  -14.084  15.523  -29.303  -1.352   3.731  -1.865  S06  J2A  44  
J2A  S25  S2   S  0  1  N  N  N  -18.404  15.232  -37.630   1.162  -4.638  -1.568  S25  J2A  45  
J2A  H1   H1   H  0  1  N  N  N  -16.248  15.360  -34.557   1.887  -0.661   1.261  H1   J2A  46  
J2A  H2   H2   H  0  1  N  N  N  -16.536  18.833  -35.768   5.049  -0.807  -1.097  H2   J2A  47  
J2A  H3   H3   H  0  1  N  N  N  -17.066  21.444  -39.298   9.552  -1.527   0.416  H3   J2A  48  
J2A  H4   H4   H  0  1  N  N  N  -12.702  18.227  -35.672   4.639   2.739   0.182  H4   J2A  49  
J2A  H5   H5   H  0  1  N  N  N  -18.193  14.920  -32.464  -2.536  -1.053   1.755  H5   J2A  50  
J2A  H6   H6   H  0  1  N  N  N  -16.729  13.140  -32.550  -3.570   0.939   0.879  H6   J2A  51  
J2A  H7   H7   H  0  1  N  N  N  -18.189  11.687  -30.358  -4.362  -0.279  -1.512  H7   J2A  52  
J2A  H8   H8   H  0  1  N  N  N  -16.715   9.596  -30.181  -4.987  -2.462   1.523  H8   J2A  53  
J2A  H9   H9   H  0  1  N  N  N  -20.482  13.451  -31.877  -1.589  -1.530  -1.114  H9   J2A  54  
J2A  H10  H10  H  0  1  N  N  N  -20.616  14.381  -33.919  -2.101  -3.364   1.283  H10  J2A  55  
J2A  H11  H11  H  0  1  N  N  N  -20.316  12.665  -34.359  -1.732  -3.949  -0.358  H11  J2A  56  
J2A  H12  H12  H  0  1  N  N  N  -14.734  16.403  -35.957   4.121  -0.173   1.695  H12  J2A  57  
J2A  H13  H13  H  0  1  N  N  N  -16.837  17.673  -33.063   1.901  -0.381  -1.602  H13  J2A  58  
J2A  H14  H14  H  0  1  N  N  N  -14.589  15.692  -33.329   1.138   1.109   0.781  H14  J2A  59  
J2A  H15  H15  H  0  1  N  N  N  -14.359  17.114  -32.256   1.886   2.199  -0.405  H15  J2A  60  
J2A  H16  H16  H  0  1  N  N  N  -17.622  12.296  -34.358  -6.029   1.626  -1.125  H16  J2A  61  
J2A  H17  H17  H  0  1  N  N  N  -16.427  11.645  -37.791  -7.424   3.401  -1.666  H17  J2A  62  
J2A  H18  H18  H  0  1  N  N  N  -17.370  12.720  -36.814  -8.897   3.597  -0.883  H18  J2A  63  
J2A  H19  H19  H  0  1  N  N  N  -12.888  22.218  -40.531   9.219   3.642   1.431  H19  J2A  64  
J2A  H20  H20  H  0  1  N  N  N  -12.042  22.089  -39.141  10.636   2.750   1.567  H20  J2A  65  
J2A  H21  H21  H  0  1  N  N  N  -18.228  15.040  -30.128  -0.198  -0.795   1.386  H21  J2A  66  
J2A  H22  H22  H  0  1  N  N  N  -16.510  15.795  -37.345   5.543  -2.043   1.137  H22  J2A  67  
J2A  H23  H23  H  0  1  N  N  N  -12.902  15.109  -29.652  -0.236   4.427  -1.585  H23  J2A  68  
J2A  H24  H24  H  0  1  N  N  N  -19.533  15.603  -38.157  -0.072  -4.955  -1.999  H24  J2A  69  
#   #
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
J2A  N37  C36  SING  N  N   1  
J2A  N35  C36  DOUB  Y  N   2  
J2A  N35  C34  SING  Y  N   3  
J2A  C36  C38  SING  Y  N   4  
J2A  C34  N33  DOUB  Y  N   5  
J2A  C38  C32  DOUB  Y  N   6  
J2A  C38  N39  SING  Y  N   7  
J2A  N33  C32  SING  Y  N   8  
J2A  S25  P24  SING  N  N   9  
J2A  C32  N31  SING  Y  N  10  
J2A  N39  C40  DOUB  Y  N  11  
J2A  O29  C28  SING  N  N  12  
J2A  N13  C12  SING  N  N  13  
J2A  N31  C40  SING  Y  N  14  
J2A  N31  C30  SING  N  N  15  
J2A  C28  C30  SING  N  N  16  
J2A  C28  C27  SING  N  N  17  
J2A  N14  C12  DOUB  N  N  18  
J2A  N14  C15  SING  N  N  19  
J2A  C12  N11  SING  N  N  20  
J2A  C30  O41  SING  N  N  21  
J2A  P24  O45  DOUB  N  N  22  
J2A  P24  O26  SING  N  N  23  
J2A  P24  O23  SING  N  N  24  
J2A  O26  C27  SING  N  N  25  
J2A  O16  C15  DOUB  N  N  26  
J2A  C27  C42  SING  N  N  27  
J2A  O23  C22  SING  N  N  28  
J2A  C15  C17  SING  N  N  29  
J2A  N11  C10  SING  N  N  30  
J2A  O41  C42  SING  N  N  31  
J2A  C22  C21  SING  N  N  32  
J2A  C42  C43  SING  N  N  33  
J2A  C17  C10  DOUB  Y  N  34  
J2A  C17  N18  SING  Y  N  35  
J2A  C10  N09  SING  Y  N  36  
J2A  C43  O44  SING  N  N  37  
J2A  C21  O20  SING  N  N  38  
J2A  C21  C02  SING  N  N  39  
J2A  O20  C08  SING  N  N  40  
J2A  N18  C19  DOUB  Y  N  41  
J2A  N09  C08  SING  N  N  42  
J2A  N09  C19  SING  Y  N  43  
J2A  C02  C03  SING  N  N  44  
J2A  C02  O01  SING  N  N  45  
J2A  O44  P05  SING  N  N  46  
J2A  O07  P05  DOUB  N  N  47  
J2A  C03  C08  SING  N  N  48  
J2A  C03  O04  SING  N  N  49  
J2A  P05  O04  SING  N  N  50  
J2A  P05  S06  SING  N  N  51  
J2A  C27  H1   SING  N  N  52  
J2A  C30  H2   SING  N  N  53  
J2A  C34  H3   SING  N  N  54  
J2A  C40  H4   SING  N  N  55  
J2A  C02  H5   SING  N  N  56  
J2A  C03  H6   SING  N  N  57  
J2A  C08  H7   SING  N  N  58  
J2A  C19  H8   SING  N  N  59  
J2A  C21  H9   SING  N  N  60  
J2A  C22  H10  SING  N  N  61  
J2A  C22  H11  SING  N  N  62  
J2A  C28  H12  SING  N  N  63  
J2A  C42  H13  SING  N  N  64  
J2A  C43  H14  SING  N  N  65  
J2A  C43  H15  SING  N  N  66  
J2A  N11  H16  SING  N  N  67  
J2A  N13  H17  SING  N  N  68  
J2A  N13  H18  SING  N  N  69  
J2A  N37  H19  SING  N  N  70  
J2A  N37  H20  SING  N  N  71  
J2A  O01  H21  SING  N  N  72  
J2A  O29  H22  SING  N  N  73  
J2A  S06  H23  SING  N  N  74  
J2A  S25  H24  SING  N  N  75  
#   #
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
J2A  SMILES            ACDLabs               12.01  "C54C(COP(OC1C(O)C(OC1n3c2c(C(N=C(N2)N)=O)nc3)COP(O4)(=O)S)(=O)S)OC(C5O)n6c7c(nc6)c(ncn7)N"  
J2A  InChI             InChI                 1.03   "InChI=1S/C20H24N10O11P2S2/c21-14-8-15(24-3-23-14)29(4-25-8)18-11(32)12-7(39-18)2-37-43(35,45)41-13-10(31)6(1-36-42(34,44)40-12)38-19(13)30-5-26-9-16(30)27-20(22)28-17(9)33/h3-7,10-13,18-19,31-32H,1-2H2,(H,34,44)(H,35,45)(H2,21,23,24)(H3,22,27,28,33)/t6-,7-,10-,11-,12-,13-,18-,19-,42+,43-/m1/s1"  
J2A  InChIKey          InChI                 1.03   NVOTUSOAWRDABP-JRZJYRHUSA-N  
J2A  SMILES_CANONICAL  CACTVS                3.385  "NC1=NC(=O)c2ncn([C@@H]3O[C@@H]4CO[P@@](S)(=O)O[C@H]5[C@@H](O)[C@@H](O[C@@H]5CO[P@](S)(=O)O[C@@H]3[C@@H]4O)n6cnc7c(N)ncnc67)c2N1"  
J2A  SMILES            CACTVS                3.385  "NC1=NC(=O)c2ncn([CH]3O[CH]4CO[P](S)(=O)O[CH]5[CH](O)[CH](O[CH]5CO[P](S)(=O)O[CH]3[CH]4O)n6cnc7c(N)ncnc67)c2N1"  
J2A  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@H]4[C@H](O3)CO[P@](=O)(O[C@@H]5[C@@H]([C@@H](CO[P@@](=O)(O4)S)O[C@H]5n6cnc7c6NC(=NC7=O)N)O)S)O)N"  
J2A  SMILES            "OpenEye OEToolkits"  2.0.6  "c1nc(c2c(n1)n(cn2)C3C(C4C(O3)COP(=O)(OC5C(C(COP(=O)(O4)S)OC5n6cnc7c6NC(=NC7=O)N)O)S)O)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
J2A  "SYSTEMATIC NAME"  ACDLabs               12.01  "(2S,5R,7R,8R,10R,12aR,14R,15R,15aS,16R)-7-(2-amino-6-oxo-3,6-dihydro-9H-purin-9-yl)-14-(6-amino-9H-purin-9-yl)-15,16-dihydroxy-2,10-disulfanyloctahydro-2H,10H,12H-5,8-methano-2lambda~5~,10lambda~5~-furo[3,2-l][1,3,6,9,11,2,10]pentaoxadiphosphacyclotetradecine-2,10-dione"  
J2A  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.6  "9-[(1~{R},3~{R},6~{R},8~{R},9~{R},10~{S},12~{S},15~{R},17~{R},18~{R})-8-(6-aminopurin-9-yl)-9,18-bis(oxidanyl)-3,12-bis(oxidanylidene)-3,12-bis(sulfanyl)-2,4,7,11,13,16-hexaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecan-17-yl]-2-azanyl-3~{H}-purin-6-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
J2A  "Create component"  2018-08-03  RCSB  
J2A  "Modify synonyms"   2018-08-31  RCSB  
J2A  "Modify synonyms"   2018-09-04  RCSB  
J2A  "Initial release"   2019-02-06  RCSB  
J2A  "Modify synonyms"   2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     J2A
_pdbx_chem_comp_synonyms.name        "nonhydrolyzable phosphorothioate analog of 2'3' cyclic GMP-AMP"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
