data_LPS
#

_chem_comp.id                                   LPS
_chem_comp.name                                 "O-{HYDROXY[((2R)-2-HYDROXY-3-{[(1S)-1-HYDROXYPENTADECYL]OXY}PROPYL)OXY]PHOSPHORYL}-L-SERINE"
_chem_comp.type                                 "L-PEPTIDE LINKING"
_chem_comp.pdbx_type                            ATOMP
_chem_comp.formula                              "C21 H44 N O9 P"
_chem_comp.mon_nstd_parent_comp_id              SER
_chem_comp.pdbx_synonyms                        LYSOPHOSPHOTIDYLSERINE
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2003-02-21
_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                       485.549
_chem_comp.one_letter_code                      S
_chem_comp.three_letter_code                    LPS
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  N
_chem_comp.pdbx_ideal_coordinates_details       ?
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       1NL2
_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
LPS  OT2   OT2   O  0  1  N  N  N   5.676  31.287  131.997  -1.173  -0.921  -12.483  OT2   LPS   1  
LPS  C     C     C  0  1  N  N  N   4.504  31.572  131.622  -0.516   0.135  -11.979  C     LPS   2  
LPS  OT1   OT1   O  0  1  N  N  N   4.204  32.577  130.930  -0.702   1.237  -12.437  OT1   LPS   3  
LPS  C12   C12   C  0  1  N  N  S   3.297  30.690  132.010   0.454  -0.054  -10.842  C12   LPS   4  
LPS  N     N     N  0  1  N  N  N   3.727  29.387  132.606   1.514   0.959  -10.929  N     LPS   5  
LPS  C11   C11   C  0  1  N  N  N   2.219  31.384  132.905  -0.284   0.094   -9.510  C11   LPS   6  
LPS  O12   O12   O  0  1  N  N  N   2.072  32.826  132.722   0.635  -0.084   -8.432  O12   LPS   7  
LPS  P     P     P  0  1  N  N  R   2.650  34.071  133.621  -0.205   0.083   -7.070  P     LPS   8  
LPS  O13   O13   O  0  1  N  N  N   3.781  33.604  134.462  -0.808   1.434   -7.026  O13   LPS   9  
LPS  O14   O14   O  0  1  N  N  N   2.897  35.229  132.745  -1.370  -1.026   -7.017  O14   LPS  10  
LPS  O11   O11   O  0  1  N  N  N   1.380  34.424  134.544   0.775  -0.107   -5.807  O11   LPS  11  
LPS  C1    C1    C  0  1  N  N  N   0.893  33.903  135.781  -0.025   0.052   -4.634  C1    LPS  12  
LPS  C2    C2    C  0  1  N  N  R  -0.566  34.345  135.983   0.849  -0.117   -3.391  C2    LPS  13  
LPS  O21   O21   O  0  1  N  N  N  -0.628  35.600  136.651   1.433  -1.421   -3.395  O21   LPS  14  
LPS  C3    C3    C  0  1  N  N  N  -1.445  33.338  136.723  -0.007   0.054   -2.136  C3    LPS  15  
LPS  O31   O31   O  0  1  N  N  N  -1.890  32.339  135.803   0.810  -0.104   -0.975  O31   LPS  16  
LPS  C31   C31   C  0  1  N  N  R  -3.120  31.840  135.987  -0.043   0.065    0.157  C31   LPS  17  
LPS  O32   O32   O  0  1  N  N  N  -4.118  32.504  136.204  -1.078  -0.919    0.127  O32   LPS  18  
LPS  C32   C32   C  0  1  N  N  N  -3.071  30.274  135.816   0.774  -0.092    1.441  C32   LPS  19  
LPS  C33   C33   C  0  1  N  N  N  -2.606  29.354  136.981  -0.139   0.089    2.654  C33   LPS  20  
LPS  C34   C34   C  0  1  N  N  N  -3.089  27.885  136.799   0.678  -0.068    3.937  C34   LPS  21  
LPS  C35   C35   C  0  1  N  N  N  -2.714  26.874  137.903  -0.236   0.113    5.151  C35   LPS  22  
LPS  C36   C36   C  0  1  N  N  N  -3.491  26.999  139.227   0.581  -0.045    6.434  C36   LPS  23  
LPS  C37   C37   C  0  1  N  N  N  -4.601  25.956  139.411  -0.332   0.137    7.647  C37   LPS  24  
LPS  C38   C38   C  0  1  N  N  N  -5.838  26.509  140.147   0.485  -0.021    8.930  C38   LPS  25  
LPS  C39   C39   C  0  1  N  N  N  -7.205  26.369  139.419  -0.428   0.161   10.144  C39   LPS  26  
LPS  C40   C40   C  0  1  N  N  N  -7.465  27.221  138.141   0.389   0.002   11.427  C40   LPS  27  
LPS  C41   C41   C  0  1  N  N  N  -7.683  28.743  138.316  -0.524   0.185   12.640  C41   LPS  28  
LPS  C42   C42   C  0  1  N  N  N  -6.607  29.610  137.659   0.293   0.026   13.923  C42   LPS  29  
LPS  C43   C43   C  0  1  N  N  N  -6.515  31.050  138.123  -0.620   0.209   15.137  C43   LPS  30  
LPS  C44   C44   C  0  1  N  N  N  -5.507  31.272  139.194   0.197   0.050   16.420  C44   LPS  31  
LPS  C45   C45   C  0  1  N  N  N  -5.173  32.732  139.413  -0.716   0.232   17.633  C45   LPS  32  
LPS  HT2   HT2   H  0  1  N  N  N   5.902  30.527  132.520  -1.795  -0.800  -13.213  HT2   LPS  33  
LPS  H12   H12   H  0  1  N  N  N   2.784  30.495  131.038   0.896  -1.048  -10.903  H12   LPS  34  
LPS  HN1   1HN   H  0  1  N  N  N   2.929  28.804  132.862   1.061   1.859  -10.868  HN1   LPS  35  
LPS  HN2   2HN   H  0  1  N  N  N   4.351  29.530  133.399   2.077   0.862  -10.098  HN2   LPS  36  
LPS  H111  1H11  H  0  0  N  N  N   1.232  30.881  132.769  -1.070  -0.657   -9.446  H111  LPS  37  
LPS  H112  2H11  H  0  0  N  N  N   2.413  31.155  133.978  -0.726   1.088   -9.449  H112  LPS  38  
LPS  H14   H14   H  0  1  N  N  N   3.231  35.949  133.265  -0.935  -1.889   -7.048  H14   LPS  39  
LPS  H11   1H1   H  0  1  N  N  N   1.011  32.796  135.848  -0.471   1.047   -4.631  H11   LPS  40  
LPS  H12A  2H1   H  0  0  N  N  N   1.542  34.185  136.642  -0.815  -0.698   -4.628  H12A  LPS  41  
LPS  H2    H2    H  0  1  N  Y  N  -0.980  34.426  134.950   1.639   0.634   -3.397  H2    LPS  42  
LPS  H21   H21   H  0  1  N  N  N  -1.529  35.873  136.775   0.703  -2.054   -3.389  H21   LPS  43  
LPS  H31A  1H3   H  0  0  N  N  N  -0.931  32.898  137.609  -0.453   1.049   -2.133  H31A  LPS  44  
LPS  H32A  2H3   H  0  0  N  N  N  -2.291  33.827  137.258  -0.797  -0.697   -2.130  H32A  LPS  45  
LPS  H31   H31   H  0  1  N  N  N  -3.996  32.354  136.444  -0.488   1.060    0.131  H31   LPS  46  
LPS  H32   H32   H  0  1  N  N  N  -4.990  32.150  136.334  -0.642  -1.782    0.152  H32   LPS  47  
LPS  H321  1H32  H  0  0  N  N  N  -4.078  29.930  135.485   1.219  -1.087    1.467  H321  LPS  48  
LPS  H322  2H32  H  0  0  N  N  N  -2.445  30.043  134.922   1.563   0.658    1.464  H322  LPS  49  
LPS  H331  1H33  H  0  0  N  N  N  -1.500  29.401  137.115  -0.584   1.084    2.627  H331  LPS  50  
LPS  H332  2H33  H  0  0  N  N  N  -2.922  29.763  137.968  -0.928  -0.662    2.631  H332  LPS  51  
LPS  H341  1H34  H  0  0  N  N  N  -4.193  27.875  136.648   1.123  -1.063    3.964  H341  LPS  52  
LPS  H342  2H34  H  0  0  N  N  N  -2.740  27.500  135.812   1.467   0.682    3.960  H342  LPS  53  
LPS  H351  1H35  H  0  0  N  N  N  -2.802  25.834  137.509  -0.680   1.108    5.124  H351  LPS  54  
LPS  H352  2H35  H  0  0  N  N  N  -1.617  26.920  138.102  -1.025  -0.638    5.127  H352  LPS  55  
LPS  H361  1H36  H  0  0  N  N  N  -2.789  26.977  140.093   1.026  -1.039    6.460  H361  LPS  56  
LPS  H362  2H36  H  0  0  N  N  N  -3.902  28.029  139.340   1.370   0.706    6.457  H362  LPS  57  
LPS  H371  1H37  H  0  0  N  N  N  -4.889  25.506  138.432  -0.777   1.132    7.620  H371  LPS  58  
LPS  H372  2H37  H  0  0  N  N  N  -4.209  25.045  139.922  -1.121  -0.614    7.624  H372  LPS  59  
LPS  H381  1H38  H  0  0  N  N  N  -5.905  26.050  141.160   0.930  -1.015    8.957  H381  LPS  60  
LPS  H382  2H38  H  0  0  N  N  N  -5.665  27.577  140.416   1.274   0.730    8.953  H382  LPS  61  
LPS  H391  1H39  H  0  0  N  N  N  -7.375  25.294  139.176  -0.873   1.156   10.117  H391  LPS  62  
LPS  H392  2H39  H  0  0  N  N  N  -8.024  26.558  140.151  -1.217  -0.590   10.120  H392  LPS  63  
LPS  H401  1H40  H  0  0  N  N  N  -6.637  27.051  137.413   0.834  -0.992   11.453  H401  LPS  64  
LPS  H402  2H40  H  0  0  N  N  N  -8.328  26.789  137.583   1.178   0.754   11.450  H402  LPS  65  
LPS  H411  1H41  H  0  0  N  N  N  -8.695  29.036  137.953  -0.969   1.179   12.613  H411  LPS  66  
LPS  H412  2H41  H  0  0  N  N  N  -7.786  29.000  139.395  -1.313  -0.566   12.617  H412  LPS  67  
LPS  H421  1H42  H  0  0  N  N  N  -5.612  29.117  137.768   0.738  -0.968   13.950  H421  LPS  68  
LPS  H422  2H42  H  0  0  N  N  N  -6.729  29.581  136.551   1.082   0.778   13.947  H422  LPS  69  
LPS  H431  1H43  H  0  0  N  N  N  -6.326  31.729  137.259  -1.065   1.203   15.110  H431  LPS  70  
LPS  H432  2H43  H  0  0  N  N  N  -7.515  31.424  138.441  -1.409  -0.542   15.113  H432  LPS  71  
LPS  H441  1H44  H  0  0  N  N  N  -5.831  30.793  140.147   0.642  -0.944   16.446  H441  LPS  72  
LPS  H442  2H44  H  0  0  N  N  N  -4.582  30.680  138.995   0.986   0.802   16.443  H442  LPS  73  
LPS  H451  1H45  H  0  0  N  N  N  -4.417  32.898  140.215  -0.134   0.119   18.547  H451  LPS  74  
LPS  H452  2H45  H  0  0  N  N  N  -4.848  33.210  138.459  -1.161   1.227   17.606  H452  LPS  75  
LPS  H453  3H45  H  0  0  N  N  N  -6.097  33.323  139.611  -1.505  -0.518   17.610  H453  LPS  76  
#   #
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
LPS  OT2  C     SING  N  N   1  
LPS  OT2  HT2   SING  N  N   2  
LPS  C    OT1   DOUB  N  N   3  
LPS  C    C12   SING  N  N   4  
LPS  C12  N     SING  N  N   5  
LPS  C12  C11   SING  N  N   6  
LPS  C12  H12   SING  N  N   7  
LPS  N    HN1   SING  N  N   8  
LPS  N    HN2   SING  N  N   9  
LPS  C11  O12   SING  N  N  10  
LPS  C11  H111  SING  N  N  11  
LPS  C11  H112  SING  N  N  12  
LPS  O12  P     SING  N  N  13  
LPS  P    O13   DOUB  N  N  14  
LPS  P    O14   SING  N  N  15  
LPS  P    O11   SING  N  N  16  
LPS  O14  H14   SING  N  N  17  
LPS  O11  C1    SING  N  N  18  
LPS  C1   C2    SING  N  N  19  
LPS  C1   H11   SING  N  N  20  
LPS  C1   H12A  SING  N  N  21  
LPS  C2   O21   SING  N  N  22  
LPS  C2   C3    SING  N  N  23  
LPS  C2   H2    SING  N  N  24  
LPS  O21  H21   SING  N  N  25  
LPS  C3   O31   SING  N  N  26  
LPS  C3   H31A  SING  N  N  27  
LPS  C3   H32A  SING  N  N  28  
LPS  O31  C31   SING  N  N  29  
LPS  C31  O32   SING  N  N  30  
LPS  C31  C32   SING  N  N  31  
LPS  C31  H31   SING  N  N  32  
LPS  O32  H32   SING  N  N  33  
LPS  C32  C33   SING  N  N  34  
LPS  C32  H321  SING  N  N  35  
LPS  C32  H322  SING  N  N  36  
LPS  C33  C34   SING  N  N  37  
LPS  C33  H331  SING  N  N  38  
LPS  C33  H332  SING  N  N  39  
LPS  C34  C35   SING  N  N  40  
LPS  C34  H341  SING  N  N  41  
LPS  C34  H342  SING  N  N  42  
LPS  C35  C36   SING  N  N  43  
LPS  C35  H351  SING  N  N  44  
LPS  C35  H352  SING  N  N  45  
LPS  C36  C37   SING  N  N  46  
LPS  C36  H361  SING  N  N  47  
LPS  C36  H362  SING  N  N  48  
LPS  C37  C38   SING  N  N  49  
LPS  C37  H371  SING  N  N  50  
LPS  C37  H372  SING  N  N  51  
LPS  C38  C39   SING  N  N  52  
LPS  C38  H381  SING  N  N  53  
LPS  C38  H382  SING  N  N  54  
LPS  C39  C40   SING  N  N  55  
LPS  C39  H391  SING  N  N  56  
LPS  C39  H392  SING  N  N  57  
LPS  C40  C41   SING  N  N  58  
LPS  C40  H401  SING  N  N  59  
LPS  C40  H402  SING  N  N  60  
LPS  C41  C42   SING  N  N  61  
LPS  C41  H411  SING  N  N  62  
LPS  C41  H412  SING  N  N  63  
LPS  C42  C43   SING  N  N  64  
LPS  C42  H421  SING  N  N  65  
LPS  C42  H422  SING  N  N  66  
LPS  C43  C44   SING  N  N  67  
LPS  C43  H431  SING  N  N  68  
LPS  C43  H432  SING  N  N  69  
LPS  C44  C45   SING  N  N  70  
LPS  C44  H441  SING  N  N  71  
LPS  C44  H442  SING  N  N  72  
LPS  C45  H451  SING  N  N  73  
LPS  C45  H452  SING  N  N  74  
LPS  C45  H453  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
LPS  SMILES            ACDLabs               10.04  "O=C(O)C(N)COP(=O)(OCC(O)COC(O)CCCCCCCCCCCCCC)O"  
LPS  SMILES_CANONICAL  CACTVS                3.341  "CCCCCCCCCCCCCC[C@H](O)OC[C@@H](O)CO[P@@](O)(=O)OC[C@H](N)C(O)=O"  
LPS  SMILES            CACTVS                3.341  "CCCCCCCCCCCCCC[CH](O)OC[CH](O)CO[P](O)(=O)OC[CH](N)C(O)=O"  
LPS  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "CCCCCCCCCCCCCCC(O)OC[C@H](CO[P@](=O)(O)OC[C@@H](C(=O)O)N)O"  
LPS  SMILES            "OpenEye OEToolkits"  1.5.0  "CCCCCCCCCCCCCCC(O)OCC(COP(=O)(O)OCC(C(=O)O)N)O"  
LPS  InChI             InChI                 1.03   "InChI=1S/C21H44NO9P/c1-2-3-4-5-6-7-8-9-10-11-12-13-14-20(24)29-15-18(23)16-30-32(27,28)31-17-19(22)21(25)26/h18-20,23-24H,2-17,22H2,1H3,(H,25,26)(H,27,28)/t18-,19+,20-/m1/s1"  
LPS  InChIKey          InChI                 1.03   RPZLJDFLPRHXGM-HSALFYBXSA-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
LPS  "SYSTEMATIC NAME"  ACDLabs               10.04  "O-[(R)-hydroxy{[(2R)-2-hydroxy-3-{[(1R)-1-hydroxypentadecyl]oxy}propyl]oxy}phosphoryl]-L-serine"  
LPS  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "(2S)-2-amino-3-[hydroxy-[(2R)-2-hydroxy-3-(1-hydroxypentadecoxy)propoxy]phosphoryl]oxy-propanoic 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
LPS  "Create component"   2003-02-21  RCSB  
LPS  "Modify descriptor"  2011-06-04  RCSB  
LPS  "Modify synonyms"    2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     LPS
_pdbx_chem_comp_synonyms.name        LYSOPHOSPHOTIDYLSERINE
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
