data_PGM # _chem_comp.id PGM _chem_comp.name "1-MYRISTOYL-2-HYDROXY-SN-GLYCERO-3-[PHOSPHO-RAC-(1-GLYCEROL)]" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C22 H44 O9 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms LYSOPHOSPHATIDYLGLYCEROL _chem_comp.pdbx_formal_charge -1 _chem_comp.pdbx_initial_date 2002-12-12 _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 483.553 _chem_comp.one_letter_code ? _chem_comp.three_letter_code PGM _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 1N89 _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 PGM C1 C1 C 0 1 N N N -4.626 -8.785 15.980 -12.983 -0.907 -0.135 C1 PGM 1 PGM O1 O1 O 0 1 N N N -5.901 -9.368 16.088 -13.719 -2.115 -0.340 O1 PGM 2 PGM C2 C2 C 0 1 N N S -4.514 -8.115 14.682 -11.494 -1.233 -0.008 C2 PGM 3 PGM O2 O2 O 0 1 N N N -3.192 -8.229 14.219 -11.276 -2.013 1.169 O2 PGM 4 PGM C3 C3 C 0 1 N N N -4.872 -6.697 14.765 -10.694 0.068 0.087 C3 PGM 5 PGM O4 O4 O 0 1 N N N -4.453 -6.052 13.554 -9.297 -0.231 0.089 O4 PGM 6 PGM P5 P5 P 0 1 N N N -5.571 -5.662 12.472 -8.157 0.902 0.177 P5 PGM 7 PGM O5A O5A O 0 1 N N N -6.138 -6.899 11.889 -8.365 1.932 -0.956 O5A PGM 8 PGM O5B O5B O -1 1 N N N -6.506 -4.698 13.091 -8.247 1.617 1.545 O5B PGM 9 PGM O6 O6 O 0 1 N N N -4.771 -4.895 11.317 -6.707 0.220 0.023 O6 PGM 10 PGM C7 C7 C 0 1 N N N -5.517 -4.403 10.127 -5.495 0.973 -0.045 C7 PGM 11 PGM C8 C8 C 0 1 N N S -4.674 -4.071 8.976 -4.308 0.019 -0.190 C8 PGM 12 PGM O8 O8 O 0 1 N N N -4.502 -5.067 7.998 -4.398 -0.666 -1.441 O8 PGM 13 PGM C9 C9 C 0 1 N N N -5.092 -2.849 8.336 -3.003 0.816 -0.138 C9 PGM 14 PGM OQ1 OQ1 O 0 1 N N N -4.809 -0.014 7.540 -0.521 1.644 -0.065 OQ1 PGM 15 PGM OQ2 OQ2 O 0 1 N N N -3.987 -1.843 8.332 -1.876 -0.100 -0.156 OQ2 PGM 16 PGM CA CA C 0 1 N N N -3.983 -0.990 7.498 -0.649 0.444 -0.115 CA PGM 17 PGM CB CB C 0 1 N N N -2.954 -0.905 6.454 0.568 -0.444 -0.131 CB PGM 18 PGM CC CC C 0 1 N N N -3.420 -1.153 5.044 1.830 0.420 -0.076 CC PGM 19 PGM CD CD C 0 1 N N N -2.357 -1.659 4.109 3.066 -0.481 -0.093 CD PGM 20 PGM CE CE C 0 1 N N N -1.918 -0.659 3.082 4.328 0.383 -0.038 CE PGM 21 PGM CF CF C 0 1 N N N -0.482 -0.244 3.200 5.564 -0.518 -0.054 CF PGM 22 PGM CG CG C 0 1 N N N 0.086 0.397 1.967 6.826 0.346 0.000 CG PGM 23 PGM CH CH C 0 1 N N N 1.294 1.244 2.191 8.062 -0.555 -0.016 CH PGM 24 PGM CI CI C 0 1 N N N 2.108 1.523 0.971 9.324 0.310 0.039 CI PGM 25 PGM CJ CJ C 0 1 N N N 2.257 2.970 0.637 10.560 -0.591 0.022 CJ PGM 26 PGM CK CK C 0 1 N N N 1.510 3.430 -0.572 11.822 0.273 0.077 CK PGM 27 PGM CL CL C 0 1 N N N 1.860 4.805 -1.053 13.058 -0.628 0.061 CL PGM 28 PGM CM CM C 0 1 N N N 0.805 5.484 -1.866 14.319 0.236 0.115 CM PGM 29 PGM CN CN C 0 1 N N N 1.102 5.599 -3.327 15.556 -0.665 0.099 CN PGM 30 PGM CO CO C 0 1 N N N 0.893 6.958 -3.914 16.817 0.199 0.154 CO PGM 31 PGM CP CP C 0 1 N N N 2.061 7.481 -4.697 18.054 -0.702 0.137 CP PGM 32 PGM HC11 1HC1 H 0 0 N N N -4.398 -8.101 16.831 -13.138 -0.239 -0.982 HC11 PGM 33 PGM HC12 2HC1 H 0 0 N N N -3.806 -9.522 16.148 -13.329 -0.422 0.778 HC12 PGM 34 PGM HO1 HO1 H 0 1 N N N -5.973 -9.802 16.929 -14.673 -1.984 -0.430 HO1 PGM 35 PGM HC2 HC2 H 0 1 N N N -5.225 -8.607 13.978 -11.169 -1.796 -0.882 HC2 PGM 36 PGM HO2 HO2 H 0 1 N N N -3.119 -7.794 13.377 -11.542 -1.573 1.988 HO2 PGM 37 PGM HC31 1HC3 H 0 0 N N N -5.954 -6.540 14.981 -10.929 0.702 -0.768 HC31 PGM 38 PGM HC32 2HC3 H 0 0 N N N -4.461 -6.204 15.677 -10.955 0.589 1.008 HC32 PGM 39 PGM HC71 1HC7 H 0 0 N N N -6.304 -5.135 9.832 -5.531 1.642 -0.905 HC71 PGM 40 PGM HC72 2HC7 H 0 0 N N N -6.157 -3.533 10.402 -5.380 1.560 0.867 HC72 PGM 41 PGM HC8 HC8 H 0 1 N N N -3.672 -3.953 9.452 -4.324 -0.707 0.623 HC8 PGM 42 PGM HO8 HO8 H 0 1 N N N -3.955 -4.851 7.251 -4.390 -0.081 -2.211 HO8 PGM 43 PGM HC91 1HC9 H 0 0 N N N -5.482 -3.035 7.308 -2.947 1.479 -1.001 HC91 PGM 44 PGM HC92 2HC9 H 0 0 N N N -6.020 -2.439 8.798 -2.976 1.407 0.777 HC92 PGM 45 PGM HCB1 1HCB H 0 0 N N N -2.436 0.080 6.513 0.545 -1.108 0.733 HCB1 PGM 46 PGM HCB2 2HCB H 0 0 N N N -2.109 -1.590 6.699 0.574 -1.037 -1.045 HCB2 PGM 47 PGM HCC1 1HCC H 0 0 N N N -4.296 -1.842 5.042 1.853 1.084 -0.940 HCC1 PGM 48 PGM HCC2 2HCC H 0 0 N N N -3.896 -0.234 4.627 1.825 1.013 0.838 HCC2 PGM 49 PGM HCD1 1HCD H 0 0 N N N -1.480 -2.039 4.683 3.043 -1.145 0.771 HCD1 PGM 50 PGM HCD2 2HCD H 0 0 N N N -2.686 -2.604 3.618 3.072 -1.074 -1.007 HCD2 PGM 51 PGM HCE1 1HCE H 0 0 N N N -2.131 -1.036 2.054 4.351 1.048 -0.902 HCE1 PGM 52 PGM HCE2 2HCE H 0 0 N N N -2.584 0.234 3.098 4.323 0.976 0.877 HCE2 PGM 53 PGM HCF1 1HCF H 0 0 N N N -0.342 0.422 4.082 5.541 -1.182 0.809 HCF1 PGM 54 PGM HCF2 2HCF H 0 0 N N N 0.147 -1.109 3.511 5.570 -1.111 -0.969 HCF2 PGM 55 PGM HCG1 1HCG H 0 0 N N N 0.298 -0.378 1.194 6.849 1.011 -0.863 HCG1 PGM 56 PGM HCG2 2HCG H 0 0 N N N -0.702 0.984 1.441 6.820 0.939 0.915 HCG2 PGM 57 PGM HCH1 1HCH H 0 0 N N N 1.006 2.200 2.687 8.039 -1.219 0.848 HCH1 PGM 58 PGM HCH2 2HCH H 0 0 N N N 1.934 0.796 2.986 8.068 -1.148 -0.930 HCH2 PGM 59 PGM HCI1 1HCI H 0 0 N N N 3.109 1.040 1.056 9.347 0.974 -0.825 HCI1 PGM 60 PGM HCI2 2HCI H 0 0 N N N 1.698 0.964 0.097 9.318 0.903 0.953 HCI2 PGM 61 PGM HCJ1 1HCJ H 0 0 N N N 1.980 3.595 1.517 10.537 -1.256 0.886 HCJ1 PGM 62 PGM HCJ2 2HCJ H 0 0 N N N 3.336 3.230 0.540 10.565 -1.185 -0.892 HCJ2 PGM 63 PGM HCK1 1HCK H 0 0 N N N 1.628 2.692 -1.399 11.845 0.937 -0.787 HCK1 PGM 64 PGM HCK2 2HCK H 0 0 N N N 0.411 3.352 -0.396 11.816 0.866 0.992 HCK2 PGM 65 PGM HCL1 1HCL H 0 0 N N N 2.153 5.449 -0.191 13.035 -1.293 0.925 HCL1 PGM 66 PGM HCL2 2HCL H 0 0 N N N 2.821 4.780 -1.616 13.063 -1.222 -0.854 HCL2 PGM 67 PGM HCM1 1HCM H 0 0 N N N -0.179 4.982 -1.713 14.343 0.900 -0.748 HCM1 PGM 68 PGM HCM2 2HCM H 0 0 N N N 0.580 6.489 -1.440 14.314 0.829 1.030 HCM2 PGM 69 PGM HCN1 1HCN H 0 0 N N N 2.138 5.245 -3.536 15.533 -1.330 0.963 HCN1 PGM 70 PGM HCN2 2HCN H 0 0 N N N 0.517 4.840 -3.898 15.561 -1.258 -0.815 HCN2 PGM 71 PGM HCO1 1HCO H 0 0 N N N -0.031 6.974 -4.537 16.840 0.863 -0.710 HCO1 PGM 72 PGM HCO2 2HCO H 0 0 N N N 0.600 7.684 -3.119 16.812 0.792 1.068 HCO2 PGM 73 PGM HCP1 1HCP H 0 0 N N N 1.905 8.494 -5.134 18.059 -1.295 -0.777 HCP1 PGM 74 PGM HCP2 2HCP H 0 0 N N N 2.985 7.464 -4.074 18.953 -0.087 0.176 HCP2 PGM 75 PGM HCP3 3HCP H 0 0 N N N 2.353 6.755 -5.491 18.031 -1.367 1.001 HCP3 PGM 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 PGM C1 O1 SING N N 1 PGM C1 C2 SING N N 2 PGM C1 HC11 SING N N 3 PGM C1 HC12 SING N N 4 PGM O1 HO1 SING N N 5 PGM C2 O2 SING N N 6 PGM C2 C3 SING N N 7 PGM C2 HC2 SING N N 8 PGM O2 HO2 SING N N 9 PGM C3 O4 SING N N 10 PGM C3 HC31 SING N N 11 PGM C3 HC32 SING N N 12 PGM O4 P5 SING N N 13 PGM P5 O5A DOUB N N 14 PGM P5 O5B SING N N 15 PGM P5 O6 SING N N 16 PGM O6 C7 SING N N 17 PGM C7 C8 SING N N 18 PGM C7 HC71 SING N N 19 PGM C7 HC72 SING N N 20 PGM C8 O8 SING N N 21 PGM C8 C9 SING N N 22 PGM C8 HC8 SING N N 23 PGM O8 HO8 SING N N 24 PGM C9 OQ2 SING N N 25 PGM C9 HC91 SING N N 26 PGM C9 HC92 SING N N 27 PGM OQ1 CA DOUB N N 28 PGM OQ2 CA SING N N 29 PGM CA CB SING N N 30 PGM CB CC SING N N 31 PGM CB HCB1 SING N N 32 PGM CB HCB2 SING N N 33 PGM CC CD SING N N 34 PGM CC HCC1 SING N N 35 PGM CC HCC2 SING N N 36 PGM CD CE SING N N 37 PGM CD HCD1 SING N N 38 PGM CD HCD2 SING N N 39 PGM CE CF SING N N 40 PGM CE HCE1 SING N N 41 PGM CE HCE2 SING N N 42 PGM CF CG SING N N 43 PGM CF HCF1 SING N N 44 PGM CF HCF2 SING N N 45 PGM CG CH SING N N 46 PGM CG HCG1 SING N N 47 PGM CG HCG2 SING N N 48 PGM CH CI SING N N 49 PGM CH HCH1 SING N N 50 PGM CH HCH2 SING N N 51 PGM CI CJ SING N N 52 PGM CI HCI1 SING N N 53 PGM CI HCI2 SING N N 54 PGM CJ CK SING N N 55 PGM CJ HCJ1 SING N N 56 PGM CJ HCJ2 SING N N 57 PGM CK CL SING N N 58 PGM CK HCK1 SING N N 59 PGM CK HCK2 SING N N 60 PGM CL CM SING N N 61 PGM CL HCL1 SING N N 62 PGM CL HCL2 SING N N 63 PGM CM CN SING N N 64 PGM CM HCM1 SING N N 65 PGM CM HCM2 SING N N 66 PGM CN CO SING N N 67 PGM CN HCN1 SING N N 68 PGM CN HCN2 SING N N 69 PGM CO CP SING N N 70 PGM CO HCO1 SING N N 71 PGM CO HCO2 SING N N 72 PGM CP HCP1 SING N N 73 PGM CP HCP2 SING N N 74 PGM CP HCP3 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 PGM SMILES ACDLabs 10.04 "O=C(OCC(O)COP([O-])(=O)OCC(O)CO)CCCCCCCCCCCCCCC" PGM InChI InChI 1.03 "InChI=1S/C22H45O9P/c1-2-3-4-5-6-7-8-9-10-11-12-13-14-15-22(26)29-17-21(25)19-31-32(27,28)30-18-20(24)16-23/h20-21,23-25H,2-19H2,1H3,(H,27,28)/p-1/t20-,21-/m0/s1" PGM InChIKey InChI 1.03 BVJSKAUUFXBDOB-SFTDATJTSA-M PGM SMILES_CANONICAL CACTVS 3.385 "CCCCCCCCCCCCCCCC(=O)OC[C@H](O)CO[P]([O-])(=O)OC[C@@H](O)CO" PGM SMILES CACTVS 3.385 "CCCCCCCCCCCCCCCC(=O)OC[CH](O)CO[P]([O-])(=O)OC[CH](O)CO" PGM SMILES_CANONICAL "OpenEye OEToolkits" 1.7.5 "CCCCCCCCCCCCCCCC(=O)OC[C@@H](COP(=O)([O-])OC[C@H](CO)O)O" PGM SMILES "OpenEye OEToolkits" 1.7.5 "CCCCCCCCCCCCCCCC(=O)OCC(COP(=O)([O-])OCC(CO)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 PGM "SYSTEMATIC NAME" ACDLabs 10.04 "(2S)-2,3-dihydroxypropyl (2S)-3-(hexadecanoyloxy)-2-hydroxypropyl phosphate" PGM "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2S)-2,3-dihydroxypropyl] [(2S)-3-hexadecanoyloxy-2-hydroxy-propyl] phosphate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site PGM "Create component" 2002-12-12 RCSB PGM "Modify descriptor" 2011-06-04 RCSB PGM "Modify descriptor" 2012-01-05 RCSB PGM "Modify coordinates" 2012-01-05 RCSB PGM "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id PGM _pdbx_chem_comp_synonyms.name LYSOPHOSPHATIDYLGLYCEROL _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##