data_PN9
#

_chem_comp.id                                   PN9
_chem_comp.name                                 "(4Z)-4-({[(1E)-1-carboxy-3-(methylsulfanyl)propylidene]azaniumyl}methylidene)-2-methyl-5-[(phosphonooxy)methyl]-1,4-dihydropyridin-3-olate"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C13 H19 N2 O7 P S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "PLP-Met adduct intermediate in zwitterionic form"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2022-01-14
_chem_comp.pdbx_modified_date                   2022-05-27
_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                       378.338
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    ?
_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       7TCS
_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
PN9  N1   N1   N   1  1  N  N  N   -9.811  -1.988  3.680   2.309   0.794   0.102  N1   PN9   1  
PN9  C4   C1   C   0  1  N  N  N  -14.286  -3.408  4.986   1.610  -4.897  -1.544  C4   PN9   2  
PN9  C5   C2   C   0  1  N  N  N   -5.934  -0.449  4.483  -0.272   4.023  -0.305  C5   PN9   3  
PN9  C6   C3   C   0  1  N  N  N   -5.584   0.996  4.527   0.235   5.433  -0.468  C6   PN9   4  
PN9  C7   C4   C   0  1  N  N  N   -7.168  -0.889  4.138   0.611   3.007  -0.126  C7   PN9   5  
PN9  C8   C5   C   0  1  N  N  N   -7.418  -2.281  4.112   0.121   1.686   0.027  C8   PN9   6  
PN9  C10  C6   C   0  1  N  N  N   -6.393  -3.182  4.470  -1.276   1.472  -0.013  C10  PN9   7  
PN9  C13  C7   C   0  1  N  N  N  -11.131  -2.257  3.454   3.150  -0.191   0.392  C13  PN9   8  
PN9  C1   C8   C   0  1  N  N  N  -11.935  -1.181  3.317   4.527   0.025   0.322  C1   PN9   9  
PN9  C11  C9   C   0  1  N  N  N   -6.634  -4.669  4.471  -1.838   0.083   0.146  C11  PN9  10  
PN9  C12  C10  C   0  1  N  N  N   -5.189  -2.682  4.827  -2.103   2.527  -0.194  C12  PN9  11  
PN9  C2   C11  C   0  1  N  N  N  -11.606  -3.693  3.389   2.618  -1.541   0.798  C2   PN9  12  
PN9  C3   C12  C   0  1  N  N  N  -11.706  -4.358  4.765   2.418  -2.406  -0.448  C3   PN9  13  
PN9  C9   C13  C   0  1  N  N  N   -8.759  -2.831  3.769   1.010   0.606   0.214  C9   PN9  14  
PN9  N2   N2   N   0  1  N  N  N   -4.966  -1.354  4.833  -1.608   3.782  -0.332  N2   PN9  15  
PN9  O1   O1   O   0  1  N  N  N  -11.465  -0.039  3.475   5.005   1.237  -0.043  O1   PN9  16  
PN9  O2   O2   O   0  1  N  N  N  -13.117  -1.331  3.026   5.300  -0.880   0.589  O2   PN9  17  
PN9  O3   O3   O   0  1  N  N  N   -6.967  -6.664  1.212  -3.887  -1.875   1.464  O3   PN9  18  
PN9  O4   O4   O   0  1  N  N  N   -7.053  -7.619  3.544  -3.920  -2.154  -1.044  O4   PN9  19  
PN9  O5   O5   O  -1  1  N  N  N   -8.043  -0.057  3.815   1.948   3.254  -0.095  O5   PN9  20  
PN9  O6   O6   O   0  1  N  N  N   -8.860  -6.029  2.791  -5.745  -0.727   0.199  O6   PN9  21  
PN9  O7   O7   O   0  1  N  N  N   -6.541  -5.201  3.111  -3.264   0.135   0.070  O7   PN9  22  
PN9  P1   P1   P   0  1  N  N  N   -7.414  -6.467  2.641  -4.197  -1.171   0.200  P1   PN9  23  
PN9  S1   S1   S   0  1  N  N  N  -12.757  -3.434  5.919   1.778  -4.031   0.041  S1   PN9  24  
PN9  H8   H1   H   0  1  N  N  N  -15.056  -2.869  5.558   0.919  -4.350  -2.185  H8   PN9  25  
PN9  H6   H2   H   0  1  N  N  N  -14.120  -2.899  4.025   2.584  -4.959  -2.029  H6   PN9  26  
PN9  H7   H3   H   0  1  N  N  N  -14.621  -4.440  4.802   1.226  -5.902  -1.370  H7   PN9  27  
PN9  H11  H5   H   0  1  N  N  N   -4.533   1.110  4.831  -0.609   6.111  -0.595  H11  PN9  28  
PN9  H9   H6   H   0  1  N  N  N   -5.727   1.438  3.530   0.802   5.720   0.418  H9   PN9  29  
PN9  H10  H7   H   0  1  N  N  N   -6.233   1.509  5.252   0.880   5.488  -1.345  H10  PN9  30  
PN9  H14  H10  H   0  1  N  N  N   -7.638  -4.873  4.872  -1.455  -0.557  -0.648  H14  PN9  31  
PN9  H13  H11  H   0  1  N  N  N   -5.879  -5.158  5.104  -1.541  -0.321   1.114  H13  PN9  32  
PN9  H15  H12  H   0  1  N  N  N   -4.395  -3.357  5.111  -3.171   2.369  -0.225  H15  PN9  33  
PN9  H3   H13  H   0  1  N  N  N  -12.600  -3.711  2.919   3.329  -2.025   1.467  H3   PN9  34  
PN9  H2   H14  H   0  1  N  N  N  -10.898  -4.268  2.773   1.664  -1.416   1.311  H2   PN9  35  
PN9  H4   H15  H   0  1  N  N  N  -12.126  -5.367  4.638   1.707  -1.921  -1.116  H4   PN9  36  
PN9  H5   H16  H   0  1  N  N  N  -10.696  -4.433  5.193   3.372  -2.530  -0.960  H5   PN9  37  
PN9  H12  H17  H   0  1  N  N  N   -8.889  -3.889  3.594   0.625  -0.376   0.449  H12  PN9  38  
PN9  H16  H18  H   0  1  N  N  N   -4.064  -1.017  5.102  -2.222   4.523  -0.457  H16  PN9  39  
PN9  H20  H19  H   0  1  N  N  N  -12.148   0.607  3.336   5.970   1.289  -0.063  H20  PN9  40  
PN9  H21  H20  H   0  1  N  N  N   -6.596  -8.284  3.043  -4.103  -1.758  -1.907  H21  PN9  41  
PN9  H22  H21  H   0  1  N  N  N   -9.258  -5.949  1.932  -6.366  -1.465   0.274  H22  PN9  42  
PN9  H1   H22  H   0  1  N  N  N   -9.590  -1.020  3.797   2.651   1.654  -0.190  H1   PN9  43  
#   #
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
PN9  O3   P1   DOUB  N  N   1  
PN9  P1   O6   SING  N  N   2  
PN9  P1   O7   SING  N  N   3  
PN9  P1   O4   SING  N  N   4  
PN9  O2   C1   DOUB  N  N   5  
PN9  O7   C11  SING  N  N   6  
PN9  C1   C13  SING  N  N   7  
PN9  C1   O1   SING  N  N   8  
PN9  C2   C13  SING  N  N   9  
PN9  C2   C3   SING  N  N  10  
PN9  C13  N1   DOUB  N  N  11  
PN9  N1   C9   SING  N  N  12  
PN9  C9   C8   DOUB  N  Z  13  
PN9  O5   C7   SING  N  N  14  
PN9  C8   C7   SING  N  N  15  
PN9  C8   C10  SING  N  N  16  
PN9  C7   C5   DOUB  N  N  17  
PN9  C10  C11  SING  N  N  18  
PN9  C10  C12  DOUB  N  N  19  
PN9  C5   C6   SING  N  N  20  
PN9  C5   N2   SING  N  N  21  
PN9  C3   S1   SING  N  N  22  
PN9  C12  N2   SING  N  N  23  
PN9  C4   S1   SING  N  N  24  
PN9  C4   H8   SING  N  N  25  
PN9  C4   H6   SING  N  N  26  
PN9  C4   H7   SING  N  N  27  
PN9  C6   H11  SING  N  N  28  
PN9  C6   H9   SING  N  N  29  
PN9  C6   H10  SING  N  N  30  
PN9  C11  H14  SING  N  N  31  
PN9  C11  H13  SING  N  N  32  
PN9  C12  H15  SING  N  N  33  
PN9  C2   H3   SING  N  N  34  
PN9  C2   H2   SING  N  N  35  
PN9  C3   H4   SING  N  N  36  
PN9  C3   H5   SING  N  N  37  
PN9  C9   H12  SING  N  N  38  
PN9  N2   H16  SING  N  N  39  
PN9  O1   H20  SING  N  N  40  
PN9  O4   H21  SING  N  N  41  
PN9  O6   H22  SING  N  N  42  
PN9  N1   H1   SING  N  N  43  
#   #
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
PN9  SMILES            ACDLabs               12.01  "O=C(O)C(\CCSC)=[NH+]\C=C1/C([O-])=C(C)NC=C1COP(=O)(O)O"  
PN9  InChI             InChI                 1.03   "InChI=1S/C13H19N2O7PS/c1-8-12(16)10(6-15-11(13(17)18)3-4-24-2)9(5-14-8)7-22-23(19,20)21/h5-6,14,16H,3-4,7H2,1-2H3,(H,17,18)(H2,19,20,21)/b10-6-,15-11+"  
PN9  InChIKey          InChI                 1.03   UNHRYMFMFMQCNK-JNVWRRHBSA-N  
PN9  SMILES_CANONICAL  CACTVS                3.385  "CSCCC(=[NH+]\C=C1/C(=C(C)NC=C1CO[P](O)(O)=O)[O-])C(O)=O"  
PN9  SMILES            CACTVS                3.385  "CSCCC(=[NH+]C=C1C(=C(C)NC=C1CO[P](O)(O)=O)[O-])C(O)=O"  
PN9  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CC1=C(/C(=C\[NH+]=C(/CCSC)\C(=O)O)/C(=CN1)COP(=O)(O)O)[O-]"  
PN9  SMILES            "OpenEye OEToolkits"  2.0.7  "CC1=C(C(=C[NH+]=C(CCSC)C(=O)O)C(=CN1)COP(=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
PN9  "SYSTEMATIC NAME"  ACDLabs               12.01  "(4Z)-4-({[(1E)-1-carboxy-3-(methylsulfanyl)propylidene]azaniumyl}methylidene)-2-methyl-5-[(phosphonooxy)methyl]-1,4-dihydropyridin-3-olate"  
PN9  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "(4~{Z})-2-methyl-4-[(4-methylsulfanyl-1-oxidanyl-1-oxidanylidene-butan-2-ylidene)azaniumylmethylidene]-5-(phosphonooxymethyl)-1~{H}-pyridin-3-olate"  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     PN9
_pdbx_chem_comp_synonyms.name        "PLP-Met adduct intermediate in zwitterionic form"
_pdbx_chem_comp_synonyms.provenance  PDB
_pdbx_chem_comp_synonyms.type        ?
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
PN9  "Create component"  2022-01-14  RCSB  
PN9  "Modify synonyms"   2022-01-19  RCSB  
PN9  "Initial release"   2022-06-01  RCSB  
##
