data_PM5
# 
_chem_comp.id                                    PM5 
_chem_comp.name                                  "S-(2-{[N-(2-HYDROXY-4-{[HYDROXY(OXIDO)PHOSPHINO]OXY}-3,3-DIMETHYLBUTANOYL)-BETA-ALANYL]AMINO}ETHYL) HEPTANETHIOATE" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C18 H35 N2 O7 P S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2005-12-19 
_chem_comp.pdbx_modified_date                    2024-09-27 
_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                        454.518 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     PM5 
_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        2FAD 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              Y 
# 
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.pdbx_backbone_atom_flag 
_chem_comp_atom.pdbx_n_terminal_atom_flag 
_chem_comp_atom.pdbx_c_terminal_atom_flag 
_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 
PM5 O23  O23  O 0 1 N N N N N N 10.967 28.588 25.576 7.521   4.120  0.032  O23  PM5 1  
PM5 P24  P24  P 0 1 N N S N N N 10.570 28.044 24.186 6.874   2.819  0.725  P24  PM5 2  
PM5 O26  O26  O 0 1 N N N N N N 9.525  26.928 24.349 5.567   3.177  1.321  O26  PM5 3  
PM5 O27  O27  O 0 1 N N N N N N 9.952  29.206 23.376 6.662   1.670  -0.382 O27  PM5 4  
PM5 C28  C28  C 0 1 N N N N N N 9.420  29.161 22.057 6.404   0.305  -0.047 C28  PM5 5  
PM5 C29  C29  C 0 1 N N N N N N 8.776  30.517 21.684 6.254   -0.515 -1.330 C29  PM5 6  
PM5 C30  C30  C 0 1 N N N N N N 7.784  30.250 20.544 5.090   0.036  -2.156 C30  PM5 7  
PM5 C31  C31  C 0 1 N N N N N N 8.002  31.045 22.904 7.546   -0.426 -2.146 C31  PM5 8  
PM5 C32  C32  C 0 1 N N R N N N 9.839  31.552 21.225 5.978   -1.977 -0.972 C32  PM5 9  
PM5 O33  O33  O 0 1 N N N N N N 10.504 31.048 20.063 7.121   -2.531 -0.317 O33  PM5 10 
PM5 C34  C34  C 0 1 N N N N N N 9.137  32.884 20.882 4.786   -2.052 -0.052 C34  PM5 11 
PM5 O35  O35  O 0 1 N N N N N N 8.530  33.512 21.755 4.932   -2.394 1.103  O35  PM5 12 
PM5 N36  N36  N 0 1 N N N N N N 9.223  33.317 19.620 3.559   -1.739 -0.512 N36  PM5 13 
PM5 C37  C37  C 0 1 N N N N N N 8.601  34.557 19.146 2.416   -1.718 0.405  C37  PM5 14 
PM5 C38  C38  C 0 1 N N N N N N 8.998  35.009 17.731 1.151   -1.335 -0.366 C38  PM5 15 
PM5 C39  C39  C 0 1 N N N N N N 10.472 35.337 17.545 -0.024  -1.314 0.577  C39  PM5 16 
PM5 O40  O40  O 0 1 N N N N N N 11.283 34.457 17.273 0.134   -1.578 1.750  O40  PM5 17 
PM5 N41  N41  N 0 1 N N N N N N 10.767 36.633 17.700 -1.252  -1.001 0.116  N41  PM5 18 
PM5 C42  C42  C 0 1 N N N N N N 12.076 37.300 17.590 -2.394  -0.979 1.033  C42  PM5 19 
PM5 C43  C43  C 0 1 N N N N N N 12.407 37.655 16.137 -3.659  -0.597 0.262  C43  PM5 20 
PM5 S1   S1   S 0 1 N N N N N N 13.943 38.601 15.760 -5.071  -0.571 1.395  S1   PM5 21 
PM5 C1   C1   C 0 1 N N N N N N 13.637 40.174 16.585 -6.317  -0.129 0.307  C1   PM5 22 
PM5 O1   O1   O 0 1 N N N N N N 12.596 40.349 17.176 -6.061  0.060  -0.864 O1   PM5 23 
PM5 C2   C2   C 0 1 N N N N N N 14.684 41.282 16.538 -7.731  0.025  0.803  C2   PM5 24 
PM5 C3   C3   C 0 1 N N N N N N 14.371 42.371 15.508 -8.640  0.423  -0.361 C3   PM5 25 
PM5 C4   C4   C 0 1 N N N N N N 15.361 43.546 15.614 -10.076 0.580  0.143  C4   PM5 26 
PM5 C5   C5   C 0 1 N N N N N N 15.718 43.911 17.065 -10.985 0.977  -1.022 C5   PM5 27 
PM5 C6   C6   C 0 1 N N N N N N 16.746 45.041 17.156 -12.421 1.134  -0.518 C6   PM5 28 
PM5 C7   C7   C 0 1 N N N N N N 17.828 44.913 16.102 -13.330 1.531  -1.683 C7   PM5 29 
PM5 H23  H23  H 0 1 N N N N N N 11.049 27.866 26.188 7.677   4.854  0.641  H23  PM5 30 
PM5 H24  H24  H 0 1 N N N N N N 11.709 27.520 23.519 7.744   2.343  1.742  H24  PM5 31 
PM5 H281 1H28 H 0 0 N N N N N N 8.650  28.377 22.011 7.233   -0.088 0.541  H281 PM5 32 
PM5 H282 2H28 H 0 0 N N N N N N 10.232 28.941 21.349 5.484   0.241  0.534  H282 PM5 33 
PM5 H301 1H30 H 0 0 N N N N N N 8.041  29.302 20.049 5.337   1.038  -2.507 H301 PM5 34 
PM5 H302 2H30 H 0 0 N N N N N N 7.836  31.071 19.813 4.911   -0.615 -3.011 H302 PM5 35 
PM5 H303 3H30 H 0 0 N N N N N N 6.764  30.186 20.952 4.194   0.079  -1.537 H303 PM5 36 
PM5 H311 1H31 H 0 0 N N N N N N 7.215  30.327 23.177 8.364   -0.874 -1.582 H311 PM5 37 
PM5 H312 2H31 H 0 0 N N N N N N 7.545  32.014 22.657 7.418   -0.960 -3.088 H312 PM5 38 
PM5 H313 3H31 H 0 0 N N N N N N 8.693  31.171 23.751 7.775   0.620  -2.349 H313 PM5 39 
PM5 H32  H32  H 0 1 N N N N N N 10.572 31.722 22.028 5.771   -2.541 -1.881 H32  PM5 40 
PM5 H33  H33  H 0 1 N N N N N N 9.874  30.936 19.361 7.363   -2.078 0.502  H33  PM5 41 
PM5 H36  H36  H 0 1 N N N N N N 9.739  32.766 18.965 3.432   -1.528 -1.450 H36  PM5 42 
PM5 H371 1H37 H 0 0 N N N N N N 8.951  35.349 19.825 2.288   -2.705 0.847  H371 PM5 43 
PM5 H372 2H37 H 0 0 N N N N N N 7.512  34.400 19.148 2.596   -0.987 1.193  H372 PM5 44 
PM5 H381 1H38 H 0 0 N N N N N N 8.448  35.942 17.540 1.280   -0.348 -0.809 H381 PM5 45 
PM5 H382 2H38 H 0 0 N N N N N N 8.749  34.191 17.039 0.971   -2.066 -1.155 H382 PM5 46 
PM5 H41  H41  H 0 1 N N N N N N 9.995  37.229 17.920 -1.378  -0.789 -0.822 H41  PM5 47 
PM5 H421 1H42 H 0 0 N N N N N N 12.848 36.610 17.961 -2.523  -1.967 1.476  H421 PM5 48 
PM5 H422 2H42 H 0 0 N N N N N N 12.053 38.225 18.184 -2.214  -0.249 1.821  H422 PM5 49 
PM5 H431 1H43 H 0 0 N N N N N N 11.597 38.338 15.841 -3.531  0.390  -0.181 H431 PM5 50 
PM5 H432 2H43 H 0 0 N N N N N N 12.494 36.700 15.599 -3.839  -1.328 -0.526 H432 PM5 51 
PM5 H21  1H2  H 0 1 N N N N N N 15.637 40.819 16.244 -8.073  -0.919 1.225  H21  PM5 52 
PM5 H22  2H2  H 0 1 N N N N N N 14.731 41.752 17.531 -7.765  0.799  1.571  H22  PM5 53 
PM5 H31  1H3  H 0 1 N N N N N N 13.358 42.752 15.703 -8.298  1.368  -0.783 H31  PM5 54 
PM5 H32A 2H3  H 0 0 N N N N N N 14.442 41.937 14.500 -8.607  -0.351 -1.129 H32A PM5 55 
PM5 H41A 1H4  H 0 0 N N N N N N 14.876 44.425 15.164 -10.418 -0.365 0.565  H41A PM5 56 
PM5 H42  2H4  H 0 1 N N N N N N 16.287 43.263 15.093 -10.109 1.353  0.910  H42  PM5 57 
PM5 H51  1H5  H 0 1 N N N N N N 16.160 43.020 17.534 -10.643 1.922  -1.444 H51  PM5 58 
PM5 H52  2H5  H 0 1 N N N N N N 14.800 44.235 17.577 -10.952 0.203  -1.789 H52  PM5 59 
PM5 H61  1H6  H 0 1 N N N N N N 17.225 44.986 18.144 -12.763 0.189  -0.096 H61  PM5 60 
PM5 H62  2H6  H 0 1 N N N N N N 16.227 46.000 17.012 -12.455 1.907  0.249  H62  PM5 61 
PM5 H71  1H7  H 0 1 N N N N N N 18.397 43.987 16.272 -14.353 1.643  -1.324 H71  PM5 62 
PM5 H72  2H7  H 0 1 N N N N N N 18.506 45.777 16.166 -12.988 2.476  -2.105 H72  PM5 63 
PM5 H73  3H7  H 0 1 N N N N N N 17.367 44.882 15.104 -13.297 0.757  -2.450 H73  PM5 64 
# 
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 
PM5 O23 P24  SING N N 1  
PM5 O23 H23  SING N N 2  
PM5 P24 O26  DOUB N N 3  
PM5 P24 O27  SING N N 4  
PM5 P24 H24  SING N N 5  
PM5 O27 C28  SING N N 6  
PM5 C28 C29  SING N N 7  
PM5 C28 H281 SING N N 8  
PM5 C28 H282 SING N N 9  
PM5 C29 C30  SING N N 10 
PM5 C29 C31  SING N N 11 
PM5 C29 C32  SING N N 12 
PM5 C30 H301 SING N N 13 
PM5 C30 H302 SING N N 14 
PM5 C30 H303 SING N N 15 
PM5 C31 H311 SING N N 16 
PM5 C31 H312 SING N N 17 
PM5 C31 H313 SING N N 18 
PM5 C32 O33  SING N N 19 
PM5 C32 C34  SING N N 20 
PM5 C32 H32  SING N N 21 
PM5 O33 H33  SING N N 22 
PM5 C34 O35  DOUB N N 23 
PM5 C34 N36  SING N N 24 
PM5 N36 C37  SING N N 25 
PM5 N36 H36  SING N N 26 
PM5 C37 C38  SING N N 27 
PM5 C37 H371 SING N N 28 
PM5 C37 H372 SING N N 29 
PM5 C38 C39  SING N N 30 
PM5 C38 H381 SING N N 31 
PM5 C38 H382 SING N N 32 
PM5 C39 O40  DOUB N N 33 
PM5 C39 N41  SING N N 34 
PM5 N41 C42  SING N N 35 
PM5 N41 H41  SING N N 36 
PM5 C42 C43  SING N N 37 
PM5 C42 H421 SING N N 38 
PM5 C42 H422 SING N N 39 
PM5 C43 S1   SING N N 40 
PM5 C43 H431 SING N N 41 
PM5 C43 H432 SING N N 42 
PM5 S1  C1   SING N N 43 
PM5 C1  O1   DOUB N N 44 
PM5 C1  C2   SING N N 45 
PM5 C2  C3   SING N N 46 
PM5 C2  H21  SING N N 47 
PM5 C2  H22  SING N N 48 
PM5 C3  C4   SING N N 49 
PM5 C3  H31  SING N N 50 
PM5 C3  H32A SING N N 51 
PM5 C4  C5   SING N N 52 
PM5 C4  H41A SING N N 53 
PM5 C4  H42  SING N N 54 
PM5 C5  C6   SING N N 55 
PM5 C5  H51  SING N N 56 
PM5 C5  H52  SING N N 57 
PM5 C6  C7   SING N N 58 
PM5 C6  H61  SING N N 59 
PM5 C6  H62  SING N N 60 
PM5 C7  H71  SING N N 61 
PM5 C7  H72  SING N N 62 
PM5 C7  H73  SING N N 63 
# 
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 
PM5 SMILES           ACDLabs              10.04 "O=C(SCCNC(=O)CCNC(=O)C(O)C(C)(C)COP(=O)O)CCCCCC"                                                                                                                     
PM5 InChI            InChI                1.03  "InChI=1S/C18H35N2O7PS/c1-4-5-6-7-8-15(22)29-12-11-19-14(21)9-10-20-17(24)16(23)18(2,3)13-27-28(25)26/h16,23,28H,4-13H2,1-3H3,(H,19,21)(H,20,24)(H,25,26)/t16-/m0/s1" 
PM5 InChIKey         InChI                1.03  IPSBILXXAVXCDA-INIZCTEOSA-N                                                                                                                                           
PM5 SMILES_CANONICAL CACTVS               3.385 "CCCCCCC(=O)SCCNC(=O)CCNC(=O)[C@H](O)C(C)(C)CO[PH](O)=O"                                                                                                              
PM5 SMILES           CACTVS               3.385 "CCCCCCC(=O)SCCNC(=O)CCNC(=O)[CH](O)C(C)(C)CO[PH](O)=O"                                                                                                               
PM5 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.5 "CCCCCCC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)CO[P@H](=O)O)O"                                                                                                            
PM5 SMILES           "OpenEye OEToolkits" 1.7.5 "CCCCCCC(=O)SCCNC(=O)CCNC(=O)C(C(C)(C)COP(=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 
PM5 "SYSTEMATIC NAME" ACDLabs              10.04 "S-[2-({N-[(2R)-2-hydroxy-4-{[(R)-hydroxy(oxido)phosphanyl]oxy}-3,3-dimethylbutanoyl]-beta-alanyl}amino)ethyl] heptanethioate" 
PM5 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(3R)-4-[[3-(2-heptanoylsulfanylethylamino)-3-oxo-propyl]amino]-3-hydroxy-2,2-dimethyl-4-oxo-butoxy]phosphinic 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 
PM5 "Create component"   2005-12-19 RCSB 
PM5 "Modify descriptor"  2011-06-04 RCSB 
PM5 "Modify descriptor"  2012-01-05 RCSB 
PM5 "Modify coordinates" 2012-01-05 RCSB 
PM5 "Modify PCM"         2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            PM5 
_pdbx_chem_comp_pcm.modified_residue_id                SER 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           Lipid/lipid-like 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               P24 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OG 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
