data_6IH
#

_chem_comp.id                                   6IH
_chem_comp.name                                 "4,5-dimethoxy-2-nitro benzyme S-adenosyl-methionine"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C23 H30 N7 O9 S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   1
_chem_comp.pdbx_initial_date                    2021-07-28
_chem_comp.pdbx_modified_date                   2021-11-12
_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                       580.591
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    6IH
_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       7P8M
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 PDBE
#   #
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
6IH  O17  O1   O   0  1  N  N  N  -31.601  -19.381  12.428   1.221  -5.964  -1.354  O17  6IH   1  
6IH  C15  C1   C   0  1  N  N  N  -32.317  -19.773  13.360   1.765  -4.988  -1.815  C15  6IH   2  
6IH  O16  O2   O   0  1  N  N  N  -33.535  -19.516  13.438   1.766  -4.786  -3.142  O16  6IH   3  
6IH  C14  C2   C   0  1  N  N  R  -31.630  -20.570  14.425   2.435  -3.996  -0.901  C14  6IH   4  
6IH  N18  N1   N   0  1  N  N  N  -30.980  -21.730  13.786   2.717  -4.634   0.392  N18  6IH   5  
6IH  C13  C3   C   0  1  N  N  N  -32.600  -20.979  15.535   1.512  -2.795  -0.686  C13  6IH   6  
6IH  C12  C4   C   0  1  N  N  N  -32.465  -22.461  15.796   2.242  -1.730   0.135  C12  6IH   7  
6IH  S11  S1   S   1  1  N  N  R  -33.733  -23.408  16.085   1.119  -0.343   0.461  S11  6IH   8  
6IH  C7   C5   C   0  1  N  N  N  -34.893  -22.514  16.775   2.118   0.753   1.505  C7   6IH   9  
6IH  C3   C6   C   0  1  Y  N  N  -36.321  -22.347  16.363   3.171   1.427   0.663  C3   6IH  10  
6IH  C21  C7   C   0  1  Y  N  N  -36.795  -22.172  14.950   4.439   0.882   0.580  C21  6IH  11  
6IH  C61  C8   C   0  1  Y  N  N  -37.270  -22.323  17.384   2.865   2.584  -0.029  C61  6IH  12  
6IH  C51  C9   C   0  1  Y  N  N  -38.625  -22.162  17.107   3.832   3.204  -0.804  C51  6IH  13  
6IH  C41  C10  C   0  1  Y  N  N  -39.075  -21.996  15.706   5.110   2.659  -0.884  C41  6IH  14  
6IH  N8   N2   N   1  1  N  N  N  -35.976  -22.164  13.817   4.760  -0.360   1.317  N8   6IH  15  
6IH  O10  O3   O  -1  1  N  N  N  -36.530  -22.513  12.588   5.438  -1.223   0.790  O10  6IH  16  
6IH  O9   O4   O   0  1  N  N  N  -34.642  -21.800  13.875   4.345  -0.519   2.451  O9   6IH  17  
6IH  C19  C11  C   0  1  N  N  N  -33.187  -24.489  17.145  -0.071  -1.050   1.634  C19  6IH  18  
6IH  C20  C12  C   0  1  N  N  S  -33.945  -25.746  17.490  -1.180  -0.032   1.910  C20  6IH  19  
6IH  O24  O5   O   0  1  N  N  N  -35.320  -25.461  17.720  -1.886   0.264   0.693  O24  6IH  20  
6IH  C23  C13  C   0  1  N  N  R  -36.114  -26.574  17.293  -3.265   0.497   1.052  C23  6IH  21  
6IH  C22  C14  C   0  1  N  N  R  -35.172  -27.594  16.671  -3.545  -0.580   2.131  C22  6IH  22  
6IH  O26  O6   O   0  1  N  N  N  -34.855  -28.608  17.642  -4.611  -0.175   2.991  O26  6IH  23  
6IH  C27  C15  C   0  1  N  N  S  -33.954  -26.755  16.355  -2.202  -0.626   2.899  C27  6IH  24  
6IH  O25  O7   O   0  1  N  N  N  -32.778  -27.558  16.329  -2.275   0.172   4.082  O25  6IH  25  
6IH  N9   N3   N   0  1  Y  N  N  -37.124  -26.119  16.302  -4.139   0.308  -0.109  N9   6IH  26  
6IH  C8   C16  C   0  1  Y  N  N  -36.967  -26.005  14.964  -3.870  -0.456  -1.206  C8   6IH  27  
6IH  N7   N4   N   0  1  Y  N  N  -38.110  -25.547  14.382  -4.866  -0.402  -2.041  N7   6IH  28  
6IH  C5   C17  C   0  1  Y  N  N  -39.024  -25.368  15.362  -5.836   0.397  -1.535  C5   6IH  29  
6IH  C6   C18  C   0  1  Y  N  N  -40.342  -24.944  15.435  -7.102   0.816  -1.976  C6   6IH  30  
6IH  N6   N5   N   0  1  N  N  N  -41.012  -24.576  14.319  -7.604   0.390  -3.194  N6   6IH  31  
6IH  N1   N6   N   0  1  Y  N  N  -40.949  -24.886  16.645  -7.808   1.630  -1.197  N1   6IH  32  
6IH  C2   C19  C   0  1  Y  N  N  -40.320  -25.232  17.778  -7.338   2.040  -0.034  C2   6IH  33  
6IH  N3   N7   N   0  1  Y  N  N  -39.047  -25.654  17.785  -6.157   1.674   0.420  N3   6IH  34  
6IH  C4   C20  C   0  1  Y  N  N  -38.361  -25.741  16.621  -5.381   0.863  -0.289  C4   6IH  35  
6IH  C42  C21  C   0  1  N  N  N  -41.013  -20.574  15.675   7.352   2.648  -1.678  C42  6IH  36  
6IH  C31  C22  C   0  1  Y  N  N  -38.146  -22.010  14.686   5.409   1.496  -0.192  C31  6IH  37  
6IH  O41  O8   O   0  1  N  N  N  -40.398  -21.829  15.407   6.062   3.264  -1.643  O41  6IH  38  
6IH  O51  O9   O   0  1  N  N  N  -39.558  -22.143  18.112   3.533   4.342  -1.485  O51  6IH  39  
6IH  C52  C23  C   0  1  N  N  N  -39.247  -22.660  19.403   2.201   4.844  -1.357  C52  6IH  40  
6IH  H1   H1   H   0  1  N  N  N  -33.797  -18.992  12.690   1.320  -5.448  -3.688  H1   6IH  41  
6IH  H2   H2   H   0  1  N  N  N  -30.850  -19.939  14.876   3.369  -3.660  -1.352  H2   6IH  42  
6IH  H3   H3   H   0  1  N  N  N  -30.514  -22.277  14.482   3.197  -3.999   1.012  H3   6IH  43  
6IH  H4   H4   H   0  1  N  N  N  -31.672  -22.290  13.330   1.870  -4.982   0.816  H4   6IH  44  
6IH  H6   H6   H   0  1  N  N  N  -32.364  -20.421  16.453   1.228  -2.378  -1.652  H6   6IH  45  
6IH  H7   H7   H   0  1  N  N  N  -33.631  -20.753  15.224   0.617  -3.115  -0.152  H7   6IH  46  
6IH  H8   H8   H   0  1  N  N  N  -31.965  -22.882  14.912   2.571  -2.162   1.080  H8   6IH  47  
6IH  H9   H9   H   0  1  N  N  N  -31.806  -22.558  16.671   3.108  -1.373  -0.422  H9   6IH  48  
6IH  H10  H10  H   0  1  N  N  N  -34.948  -22.887  17.808   1.476   1.510   1.957  H10  6IH  49  
6IH  H11  H11  H   0  1  N  N  N  -34.487  -21.492  16.776   2.599   0.169   2.290  H11  6IH  50  
6IH  H12  H12  H   0  1  N  N  N  -36.948  -22.431  18.409   1.872   3.004   0.035  H12  6IH  51  
6IH  H13  H13  H   0  1  N  N  N  -32.208  -24.818  16.767  -0.506  -1.955   1.209  H13  6IH  52  
6IH  H14  H14  H   0  1  N  N  N  -33.051  -23.946  18.092   0.438  -1.294   2.566  H14  6IH  53  
6IH  H15  H15  H   0  1  N  N  N  -33.494  -26.209  18.380  -0.751   0.881   2.321  H15  6IH  54  
6IH  H16  H16  H   0  1  N  N  N  -36.623  -27.033  18.154  -3.390   1.497   1.466  H16  6IH  55  
6IH  H17  H17  H   0  1  N  N  N  -35.606  -28.020  15.754  -3.764  -1.544   1.671  H17  6IH  56  
6IH  H18  H18  H   0  1  N  N  N  -35.631  -29.124  17.827  -4.824  -0.816   3.683  H18  6IH  57  
6IH  H19  H19  H   0  1  N  N  N  -34.099  -26.234  15.397  -1.939  -1.655   3.147  H19  6IH  58  
6IH  H20  H20  H   0  1  N  N  N  -32.026  -27.013  16.129  -2.944  -0.123   4.715  H20  6IH  59  
6IH  H21  H21  H   0  1  N  N  N  -36.059  -26.244  14.430  -2.963  -1.022  -1.359  H21  6IH  60  
6IH  H22  H22  H   0  1  N  N  N  -41.938  -24.289  14.565  -7.079  -0.204  -3.753  H22  6IH  61  
6IH  H23  H23  H   0  1  N  N  N  -40.534  -23.816  13.878  -8.479   0.686  -3.488  H23  6IH  62  
6IH  H24  H24  H   0  1  N  N  N  -40.855  -25.169  18.714  -7.944   2.702   0.567  H24  6IH  63  
6IH  H25  H25  H   0  1  N  N  N  -42.071  -20.612  15.376   7.763   2.609  -0.669  H25  6IH  64  
6IH  H26  H26  H   0  1  N  N  N  -40.943  -20.354  16.751   7.261   1.637  -2.073  H26  6IH  65  
6IH  H27  H27  H   0  1  N  N  N  -40.500  -19.785  15.105   8.015   3.230  -2.318  H27  6IH  66  
6IH  H28  H28  H   0  1  N  N  N  -38.477  -21.893  13.665   6.399   1.069  -0.255  H28  6IH  67  
6IH  H29  H29  H   0  1  N  N  N  -40.121  -22.553  20.062   1.996   5.067  -0.310  H29  6IH  68  
6IH  H30  H30  H   0  1  N  N  N  -38.980  -23.724  19.317   2.096   5.753  -1.949  H30  6IH  69  
6IH  H31  H31  H   0  1  N  N  N  -38.399  -22.102  19.827   1.494   4.094  -1.713  H31  6IH  70  
#   #
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
6IH  O17  C15  DOUB  N  N   1  
6IH  O10  N8   SING  N  N   2  
6IH  C15  O16  SING  N  N   3  
6IH  C15  C14  SING  N  N   4  
6IH  N18  C14  SING  N  N   5  
6IH  N8   O9   DOUB  N  N   6  
6IH  N8   C21  SING  N  N   7  
6IH  N6   C6   SING  N  N   8  
6IH  N7   C8   DOUB  Y  N   9  
6IH  N7   C5   SING  Y  N  10  
6IH  C14  C13  SING  N  N  11  
6IH  C31  C21  DOUB  Y  N  12  
6IH  C31  C41  SING  Y  N  13  
6IH  C21  C3   SING  Y  N  14  
6IH  C8   N9   SING  Y  N  15  
6IH  C5   C6   DOUB  Y  N  16  
6IH  C5   C4   SING  Y  N  17  
6IH  O41  C42  SING  N  N  18  
6IH  O41  C41  SING  N  N  19  
6IH  C6   N1   SING  Y  N  20  
6IH  C13  C12  SING  N  N  21  
6IH  C41  C51  DOUB  Y  N  22  
6IH  C12  S11  SING  N  N  23  
6IH  S11  C7   SING  N  N  24  
6IH  S11  C19  SING  N  N  25  
6IH  N9   C4   SING  Y  N  26  
6IH  N9   C23  SING  N  N  27  
6IH  O25  C27  SING  N  N  28  
6IH  C27  C22  SING  N  N  29  
6IH  C27  C20  SING  N  N  30  
6IH  C3   C7   SING  N  N  31  
6IH  C3   C61  DOUB  Y  N  32  
6IH  C4   N3   DOUB  Y  N  33  
6IH  N1   C2   DOUB  Y  N  34  
6IH  C22  C23  SING  N  N  35  
6IH  C22  O26  SING  N  N  36  
6IH  C51  C61  SING  Y  N  37  
6IH  C51  O51  SING  N  N  38  
6IH  C19  C20  SING  N  N  39  
6IH  C23  O24  SING  N  N  40  
6IH  C20  O24  SING  N  N  41  
6IH  C2   N3   SING  Y  N  42  
6IH  O51  C52  SING  N  N  43  
6IH  O16  H1   SING  N  N  44  
6IH  C14  H2   SING  N  N  45  
6IH  N18  H3   SING  N  N  46  
6IH  N18  H4   SING  N  N  47  
6IH  C13  H6   SING  N  N  48  
6IH  C13  H7   SING  N  N  49  
6IH  C12  H8   SING  N  N  50  
6IH  C12  H9   SING  N  N  51  
6IH  C7   H10  SING  N  N  52  
6IH  C7   H11  SING  N  N  53  
6IH  C61  H12  SING  N  N  54  
6IH  C19  H13  SING  N  N  55  
6IH  C19  H14  SING  N  N  56  
6IH  C20  H15  SING  N  N  57  
6IH  C23  H16  SING  N  N  58  
6IH  C22  H17  SING  N  N  59  
6IH  O26  H18  SING  N  N  60  
6IH  C27  H19  SING  N  N  61  
6IH  O25  H20  SING  N  N  62  
6IH  C8   H21  SING  N  N  63  
6IH  N6   H22  SING  N  N  64  
6IH  N6   H23  SING  N  N  65  
6IH  C2   H24  SING  N  N  66  
6IH  C42  H25  SING  N  N  67  
6IH  C42  H26  SING  N  N  68  
6IH  C42  H27  SING  N  N  69  
6IH  C31  H28  SING  N  N  70  
6IH  C52  H29  SING  N  N  71  
6IH  C52  H30  SING  N  N  72  
6IH  C52  H31  SING  N  N  73  
#   #
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
6IH  InChI             InChI                 1.03   "InChI=1S/C23H29N7O9S/c1-37-14-5-11(13(30(35)36)6-15(14)38-2)7-40(4-3-12(24)23(33)34)8-16-18(31)19(32)22(39-16)29-10-28-17-20(25)26-9-27-21(17)29/h5-6,9-10,12,16,18-19,22,31-32H,3-4,7-8,24H2,1-2H3,(H2-,25,26,27,33,34)/p+1/t12-,16-,18-,19-,22-,40-/m1/s1"  
6IH  InChIKey          InChI                 1.03   NCSAUAMMJYNZMS-PKJLSVNESA-O  
6IH  SMILES_CANONICAL  CACTVS                3.385  "COc1cc(C[S@@+](CC[C@@H](N)C(O)=O)C[C@H]2O[C@H]([C@H](O)[C@@H]2O)n3cnc4c(N)ncnc34)c(cc1OC)[N+]([O-])=O"  
6IH  SMILES            CACTVS                3.385  "COc1cc(C[S+](CC[CH](N)C(O)=O)C[CH]2O[CH]([CH](O)[CH]2O)n3cnc4c(N)ncnc34)c(cc1OC)[N+]([O-])=O"  
6IH  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "COc1cc(c(cc1OC)[N+](=O)[O-])C[S@@+](CC[C@H](C(=O)O)N)C[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O"  
6IH  SMILES            "OpenEye OEToolkits"  2.0.7  "COc1cc(c(cc1OC)[N+](=O)[O-])C[S+](CCC(C(=O)O)N)CC2C(C(C(O2)n3cnc4c3ncnc4N)O)O"  
#
_pdbx_chem_comp_identifier.comp_id          6IH
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  2.0.7
_pdbx_chem_comp_identifier.identifier       "[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-[(3~{R})-3-azanyl-4-oxidanyl-4-oxidanylidene-butyl]-[(4,5-dimethoxy-2-nitro-phenyl)methyl]sulfanium"
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
6IH  "Create component"  2021-07-28  PDBE  
6IH  "Initial release"   2021-11-17  RCSB  
##
