data_GMI
#

_chem_comp.id                                   GMI
_chem_comp.name                                 "[2-[3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-4-methyl-1,3-thiazol-5-yl]ethoxy-oxidanyl-phosphoryl]methylphosphonic acid"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C13 H21 N4 O6 P2 S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   1
_chem_comp.pdbx_initial_date                    2022-01-03
_chem_comp.pdbx_modified_date                   2022-02-11
_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                       423.342
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    GMI
_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       7TDB
_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
GMI  "N1'"  N1   N  0  1  Y  N  N   8.417  17.525  -2.383   6.062  -2.321  -0.037  "N1'"  GMI   1  
GMI  "C2'"  C1   C  0  1  Y  N  N   7.193  17.199  -2.816   7.023  -1.620  -0.603  "C2'"  GMI   2  
GMI  CM2    C2   C  0  1  N  N  N   7.023  15.811  -3.371   8.079  -2.337  -1.403  CM2    GMI   3  
GMI  "N3'"  N2   N  0  1  Y  N  N   6.127  18.011  -2.791   7.086  -0.308  -0.489  "N3'"  GMI   4  
GMI  "C4'"  C3   C  0  1  Y  N  N   6.264  19.259  -2.293   6.171   0.357   0.210  "C4'"  GMI   5  
GMI  "N4'"  N3   N  0  1  N  N  N   5.220  20.101  -2.251   6.240   1.735   0.328  "N4'"  GMI   6  
GMI  "C5'"  C4   C  0  1  Y  N  N   7.540  19.668  -1.815   5.139  -0.356   0.823  "C5'"  GMI   7  
GMI  "C6'"  C5   C  0  1  Y  N  N   8.567  18.758  -1.889   5.113  -1.730   0.676  "C6'"  GMI   8  
GMI  "C7'"  C6   C  0  1  N  N  N   7.737  21.061  -1.274   4.079   0.354   1.625  "C7'"  GMI   9  
GMI  N3     N4   N  1  1  Y  N  N   9.157  21.434  -1.231   3.061   0.894   0.720  N3     GMI  10  
GMI  C2     C7   C  0  1  Y  N  N   9.804  21.895  -2.249   3.145   2.094   0.253  C2     GMI  11  
GMI  S1     S1   S  0  1  Y  N  N  11.442  22.204  -1.855   1.812   2.423  -0.767  S1     GMI  12  
GMI  C5     C8   C  0  1  Y  N  N  11.193  21.637  -0.195   1.180   0.803  -0.478  C5     GMI  13  
GMI  C4     C9   C  0  1  Y  N  N   9.907  21.267  -0.070   2.024   0.173   0.344  C4     GMI  14  
GMI  CM4    C10  C  0  1  N  N  N   9.296  20.723   1.192   1.805  -1.244   0.807  CM4    GMI  15  
GMI  C6     C11  C  0  1  N  N  N  12.234  21.586   0.890  -0.085   0.229  -1.061  C6     GMI  16  
GMI  C7     C12  C  0  1  N  N  N  13.262  22.695   0.643  -1.259   0.528  -0.126  C7     GMI  17  
GMI  O7     O1   O  0  1  N  N  N  12.672  23.838   1.257  -2.459  -0.017  -0.678  O7     GMI  18  
GMI  PA     P1   P  0  1  N  N  N  13.135  25.323   1.083  -3.892   0.110   0.043  PA     GMI  19  
GMI  O1A    O2   O  0  1  N  N  N  12.069  26.182   1.700  -3.802  -0.428   1.419  O1A    GMI  20  
GMI  O2A    O3   O  0  1  N  N  N  14.446  25.529   1.900  -4.329   1.659   0.100  O2A    GMI  21  
GMI  PB     P2   P  0  1  N  N  N  13.946  27.508  -1.139  -6.756  -0.693  -0.083  PB     GMI  22  
GMI  O1B    O4   O  0  1  N  N  N  15.368  27.767  -0.587  -7.852  -1.529  -0.915  O1B    GMI  23  
GMI  O2B    O5   O  0  1  N  N  N  12.974  28.516  -0.471  -7.193   0.856  -0.026  O2B    GMI  24  
GMI  O3B    O6   O  0  1  N  N  N  13.952  27.706  -2.616  -6.666  -1.230   1.293  O3B    GMI  25  
GMI  C3A    C13  C  0  1  N  N  N  13.432  25.733  -0.718  -5.133  -0.837  -0.899  C3A    GMI  26  
GMI  H1     H1   H  0  1  N  N  N   5.980  15.669  -3.691   8.907  -2.611  -0.749  H1     GMI  27  
GMI  H2     H2   H  0  1  N  N  N   7.693  15.676  -4.233   7.652  -3.237  -1.845  H2     GMI  28  
GMI  H3     H3   H  0  1  N  N  N   7.272  15.073  -2.594   8.443  -1.681  -2.194  H3     GMI  29  
GMI  H4     H4   H  0  1  N  N  N   4.411  19.649  -2.628   6.960   2.223  -0.102  H4     GMI  30  
GMI  H5     H5   H  0  1  N  N  N   5.043  20.365  -1.303   5.568   2.213   0.839  H5     GMI  31  
GMI  H6     H6   H  0  1  N  N  N   9.542  19.053  -1.531   4.330  -2.314   1.135  H6     GMI  32  
GMI  H7     H7   H  0  1  N  N  N   7.201  21.773  -1.919   3.614  -0.349   2.317  H7     GMI  33  
GMI  H8     H8   H  0  1  N  N  N   7.325  21.109  -0.255   4.535   1.169   2.188  H8     GMI  34  
GMI  H9     H9   H  0  1  N  N  N   9.369  22.064  -3.223   3.940   2.789   0.474  H9     GMI  35  
GMI  H10    H10  H  0  1  N  N  N   9.393  19.627   1.204   1.138  -1.246   1.669  H10    GMI  36  
GMI  H11    H11  H  0  1  N  N  N   9.816  21.147   2.063   1.358  -1.825   0.000  H11    GMI  37  
GMI  H12    H12  H  0  1  N  N  N   8.231  20.997   1.231   2.761  -1.687   1.087  H12    GMI  38  
GMI  H13    H13  H  0  1  N  N  N  11.755  21.737   1.869  -0.274   0.679  -2.036  H13    GMI  39  
GMI  H14    H14  H  0  1  N  N  N  12.736  20.607   0.875   0.024  -0.850  -1.174  H14    GMI  40  
GMI  H15    H15  H  0  1  N  N  N  14.226  22.450   1.113  -1.070   0.077   0.849  H15    GMI  41  
GMI  H16    H16  H  0  1  N  N  N  13.411  22.860  -0.434  -1.368   1.606  -0.013  H16    GMI  42  
GMI  H17    H17  H  0  1  N  N  N  14.287  26.147   2.604  -4.408   2.077  -0.768  H17    GMI  43  
GMI  H18    H18  H  0  1  N  N  N  15.949  27.998  -1.302  -8.741  -1.497  -0.537  H18    GMI  44  
GMI  H19    H19  H  0  1  N  N  N  12.574  29.061  -1.139  -7.272   1.275  -0.894  H19    GMI  45  
GMI  H20    H20  H  0  1  N  N  N  12.499  25.522  -1.262  -5.199  -0.441  -1.913  H20    GMI  46  
GMI  H21    H21  H  0  1  N  N  N  14.227  25.065  -1.081  -4.837  -1.885  -0.938  H21    GMI  47  
#   #
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
GMI  CM2    "C2'"  SING  N  N   1  
GMI  "C2'"  "N3'"  DOUB  Y  N   2  
GMI  "C2'"  "N1'"  SING  Y  N   3  
GMI  "N3'"  "C4'"  SING  Y  N   4  
GMI  O3B    PB     DOUB  N  N   5  
GMI  "N1'"  "C6'"  DOUB  Y  N   6  
GMI  "C4'"  "N4'"  SING  N  N   7  
GMI  "C4'"  "C5'"  DOUB  Y  N   8  
GMI  C2     S1     SING  Y  N   9  
GMI  C2     N3     DOUB  Y  N  10  
GMI  "C6'"  "C5'"  SING  Y  N  11  
GMI  S1     C5     SING  Y  N  12  
GMI  "C5'"  "C7'"  SING  N  N  13  
GMI  "C7'"  N3     SING  N  N  14  
GMI  N3     C4     SING  Y  N  15  
GMI  PB     C3A    SING  N  N  16  
GMI  PB     O1B    SING  N  N  17  
GMI  PB     O2B    SING  N  N  18  
GMI  C3A    PA     SING  N  N  19  
GMI  C5     C4     DOUB  Y  N  20  
GMI  C5     C6     SING  N  N  21  
GMI  C4     CM4    SING  N  N  22  
GMI  C7     C6     SING  N  N  23  
GMI  C7     O7     SING  N  N  24  
GMI  PA     O7     SING  N  N  25  
GMI  PA     O1A    DOUB  N  N  26  
GMI  PA     O2A    SING  N  N  27  
GMI  CM2    H1     SING  N  N  28  
GMI  CM2    H2     SING  N  N  29  
GMI  CM2    H3     SING  N  N  30  
GMI  "N4'"  H4     SING  N  N  31  
GMI  "N4'"  H5     SING  N  N  32  
GMI  "C6'"  H6     SING  N  N  33  
GMI  "C7'"  H7     SING  N  N  34  
GMI  "C7'"  H8     SING  N  N  35  
GMI  C2     H9     SING  N  N  36  
GMI  CM4    H10    SING  N  N  37  
GMI  CM4    H11    SING  N  N  38  
GMI  CM4    H12    SING  N  N  39  
GMI  C6     H13    SING  N  N  40  
GMI  C6     H14    SING  N  N  41  
GMI  C7     H15    SING  N  N  42  
GMI  C7     H16    SING  N  N  43  
GMI  O2A    H17    SING  N  N  44  
GMI  O1B    H18    SING  N  N  45  
GMI  O2B    H19    SING  N  N  46  
GMI  C3A    H20    SING  N  N  47  
GMI  C3A    H21    SING  N  N  48  
#   #
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
GMI  SMILES            ACDLabs               12.01  "O=P(O)(O)CP(=O)(O)OCCc1sc[n+](Cc2cnc(C)nc2N)c1C"  
GMI  InChI             InChI                 1.03   "InChI=1S/C13H20N4O6P2S/c1-9-12(3-4-23-25(21,22)8-24(18,19)20)26-7-17(9)6-11-5-15-10(2)16-13(11)14/h5,7H,3-4,6,8H2,1-2H3,(H4-,14,15,16,18,19,20,21,22)/p+1"  
GMI  InChIKey          InChI                 1.03   NSFCGDWNWBEOER-UHFFFAOYSA-O  
GMI  SMILES_CANONICAL  CACTVS                3.385  "Cc1ncc(C[n+]2csc(CCO[P](O)(=O)C[P](O)(O)=O)c2C)c(N)n1"  
GMI  SMILES            CACTVS                3.385  "Cc1ncc(C[n+]2csc(CCO[P](O)(=O)C[P](O)(O)=O)c2C)c(N)n1"  
GMI  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "Cc1c(sc[n+]1Cc2cnc(nc2N)C)CCOP(=O)(CP(=O)(O)O)O"  
GMI  SMILES            "OpenEye OEToolkits"  2.0.7  "Cc1c(sc[n+]1Cc2cnc(nc2N)C)CCOP(=O)(CP(=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
GMI  "SYSTEMATIC NAME"  ACDLabs               12.01  "3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-5-(2-{[(S)-hydroxy(phosphonomethyl)phosphoryl]oxy}ethyl)-4-methyl-1,3-thiazol-3-ium"  
GMI  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "[2-[3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-4-methyl-1,3-thiazol-3-ium-5-yl]ethoxy-oxidanyl-phosphoryl]methylphosphonic acid"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
GMI  "Create component"    2022-01-03  RCSB  
GMI  "Modify coordinates"  2022-01-13  RCSB  
GMI  "Initial release"     2022-02-16  RCSB  
##
