Hmdb loader
Record Information
Version5.0
StatusExpected but not Quantified
Creation Date2017-09-10 20:42:11 UTC
Update Date2022-11-30 19:26:44 UTC
HMDB IDHMDB0116743
Secondary Accession NumbersNone
Metabolite Identification
Common NamePG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0)
DescriptionPG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) is a phosphatidylglycerol. Phosphatidylglycerols consist of a glycerol 3-phosphate backbone esterified to either saturated or unsaturated fatty acids on carbons 1 and 2. As is the case with diacylglycerols, phosphatidylglycerols can have many different combinations of fatty acids of varying lengths and saturation attached to the C-1 and C-2 positions. PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0), in particular, consists of one 4Z,7Z,10Z,13Z,16Z-docosapentaenoyl chain to the C-1 atom, and one hexadecanoyl to the C-2 atom. In E. coli glycerophospholipid metabolism, phosphatidylglycerol is formed from phosphatidic acid (1,2-diacyl-sn-glycerol 3-phosphate) by a sequence of enzymatic reactions that proceeds via two intermediates, cytidine diphosphate diacylglycerol (CDP-diacylglycerol) and phosphatidylglycerophosphate (PGP, a phosphorylated phosphatidylglycerol). Phosphatidylglycerols, along with CDP-diacylglycerol, also serve as precursor molecules for the synthesis of cardiolipin, a phospholipid found in membranes.
Structure
Data?1563873753
Synonyms
ValueSource
1-Osbondoyl-2-palmitoyl-sn-glycero-3-phospho-(1'-glycerol)HMDB
1-Osbondoyl-2-palmitoyl-sn-glycero-3-phosphoglycerolHMDB
PG(22:5/16:0)HMDB
PG(22:5N6/16:0)HMDB
PG(22:5W6/16:0)HMDB
PG(38:5)HMDB
Phosphatidylglycerol(22:5(4Z,7Z,10Z,13Z,16Z)/16:0)HMDB
Phosphatidylglycerol(22:5/16:0)HMDB
Phosphatidylglycerol(22:5n6/16:0)HMDB
Phosphatidylglycerol(22:5W6/16:0)HMDB
Phosphatidylglycerol(38:5)HMDB
GPG(38:5)HMDB
1-(4Z,7Z,10Z,13Z,16Z-Docosapentaenoyl)-2-hexadecanoyl-sn-glycero-3-phospho-(1'-glycerol)HMDB
GPG(22:5/16:0)HMDB
1-(4Z,7Z,10Z,13Z,16Z-Docosapentaenoyl)-2-hexadecanoyl-sn-glycero-3-phosphoglycerolHMDB
[(2S)-2,3-Dihydroxypropoxy][(2R)-3-[(7Z,13Z,16Z)-docosa-4,7,10,13,16-pentaenoyloxy]-2-(hexadecanoyloxy)propoxy]phosphinateHMDB
1-osbondoyl-2-palmitoyl-sn-glycero-3-phospho-(1'-glycerol) SMPDB, HMDB
1-osbondoyl-2-palmitoyl-sn-glycero-3-phosphoglycerol SMPDB, HMDB
PG(22:5/16:0) SMPDB, HMDB
PG(22:5n6/16:0) SMPDB, HMDB
PG(22:5w6/16:0) SMPDB, HMDB
PG(38:5) SMPDB, HMDB
Phosphatidylglycerol(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) SMPDB, HMDB
Phosphatidylglycerol(22:5/16:0) SMPDB, HMDB
Phosphatidylglycerol(22:5n6/16:0) SMPDB, HMDB
Phosphatidylglycerol(22:5w6/16:0) SMPDB, HMDB
PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0)SMPDB
Chemical FormulaC44H77O10P
Average Molecular Weight797.064
Monoisotopic Molecular Weight796.525435677
IUPAC Name[(2S)-2,3-dihydroxypropoxy][(2R)-3-[(4Z,7Z,10Z,13Z,16Z)-docosa-4,7,10,13,16-pentaenoyloxy]-2-(hexadecanoyloxy)propoxy]phosphinic acid
Traditional Name(2S)-2,3-dihydroxypropoxy((2R)-3-[(4Z,7Z,10Z,13Z,16Z)-docosa-4,7,10,13,16-pentaenoyloxy]-2-(hexadecanoyloxy)propoxy)phosphinic acid
CAS Registry NumberNot Available
SMILES
[H][C@](O)(CO)COP(O)(=O)OC[C@@]([H])(COC(=O)CC\C=C/C\C=C/C\C=C/C\C=C/C\C=C/CCCCC)OC(=O)CCCCCCCCCCCCCCC
InChI Identifier
InChI=1S/C44H77O10P/c1-3-5-7-9-11-13-15-17-18-19-20-21-22-24-25-27-29-31-33-35-43(47)51-39-42(40-53-55(49,50)52-38-41(46)37-45)54-44(48)36-34-32-30-28-26-23-16-14-12-10-8-6-4-2/h11,13,17-18,20-21,24-25,29,31,41-42,45-46H,3-10,12,14-16,19,22-23,26-28,30,32-40H2,1-2H3,(H,49,50)/b13-11-,18-17-,21-20-,25-24-,31-29-/t41-,42+/m0/s1
InChI KeyRIDPTWQFVUYLIT-YVRMGVPBSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as phosphatidylglycerols. These are glycerophosphoglycerols in which two fatty acids are bonded to the 1-glycerol moiety through ester linkages. As is the case with diacylglycerols, phosphatidylglycerols can have many different combinations of fatty acids of varying lengths and saturation attached to the C-1 and C-2 positions.
KingdomOrganic compounds
Super ClassLipids and lipid-like molecules
ClassGlycerophospholipids
Sub ClassGlycerophosphoglycerols
Direct ParentPhosphatidylglycerols
Alternative Parents
Substituents
  • 1,2-diacylglycerophosphoglycerol
  • Fatty acid ester
  • Dialkyl phosphate
  • Dicarboxylic acid or derivatives
  • Organic phosphoric acid derivative
  • Phosphoric acid ester
  • Alkyl phosphate
  • Fatty acyl
  • 1,2-diol
  • Carboxylic acid ester
  • Secondary alcohol
  • Carboxylic acid derivative
  • Organic oxide
  • Organooxygen compound
  • Alcohol
  • Organic oxygen compound
  • Primary alcohol
  • Carbonyl group
  • Hydrocarbon derivative
  • Aliphatic acyclic compound
Molecular FrameworkAliphatic acyclic compounds
External DescriptorsNot Available
Ontology
Physiological effectNot Available
Disposition
Process
Naturally occurring process
RoleNot Available
Physical Properties
StateSolid
Experimental Molecular Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
PropertyValueSource
logP8.3ALOGPS
logP11.79ChemAxon
logS-7ALOGPS
pKa (Strongest Acidic)1.89ChemAxon
pKa (Strongest Basic)-3ChemAxon
Physiological Charge-1ChemAxon
Hydrogen Acceptor Count6ChemAxon
Hydrogen Donor Count3ChemAxon
Polar Surface Area148.82 ŲChemAxon
Rotatable Bond Count41ChemAxon
Refractivity228.5 m³·mol⁻¹ChemAxon
Polarizability93.31 ųChemAxon
Number of Rings0ChemAxon
BioavailabilityNoChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
Predicted Chromatographic Properties

Predicted Collision Cross Sections

PredictorAdduct TypeCCS Value (Å2)Reference
DarkChem[M+H]+304.82131661259
DarkChem[M-H]-293.15431661259
DeepCCS[M+H]+285.85830932474
DeepCCS[M-H]-283.96330932474
DeepCCS[M-2H]-317.20530932474
DeepCCS[M+Na]+291.63730932474
AllCCS[M+H]+287.832859911
AllCCS[M+H-H2O]+287.732859911
AllCCS[M+NH4]+287.932859911
AllCCS[M+Na]+287.932859911
AllCCS[M-H]-282.232859911
AllCCS[M+Na-2H]-289.432859911
AllCCS[M+HCOO]-297.432859911

Predicted Retention Times

Underivatized

Chromatographic MethodRetention TimeReference
Measured using a Waters Acquity ultraperformance liquid chromatography (UPLC) ethylene-bridged hybrid (BEH) C18 column (100 mm × 2.1 mm; 1.7 μmparticle diameter). Predicted by Afia on May 17, 2022.6.78 minutes32390414
Predicted by Siyang on May 30, 202233.4735 minutes33406817
Predicted by Siyang using ReTip algorithm on June 8, 20222.02 minutes32390414
Fem_Long = Waters ACQUITY UPLC HSS T3 C18 with Water:MeOH and 0.1% Formic Acid5746.2 seconds40023050
Fem_Lipids = Ascentis Express C18 with (60:40 water:ACN):(90:10 IPA:ACN) and 10mM NH4COOH + 0.1% Formic Acid333.8 seconds40023050
Life_Old = Waters ACQUITY UPLC BEH C18 with Water:(20:80 acetone:ACN) and 0.1% Formic Acid332.7 seconds40023050
Life_New = RP Waters ACQUITY UPLC HSS T3 C18 with Water:(30:70 MeOH:ACN) and 0.1% Formic Acid239.8 seconds40023050
RIKEN = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid1205.8 seconds40023050
Eawag_XBridgeC18 = XBridge C18 3.5u 2.1x50 mm with Water:MeOH and 0.1% Formic Acid1891.3 seconds40023050
BfG_NTS_RP1 =Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) with Water:ACN and 0.1% Formic Acid1139.8 seconds40023050
HILIC_BDD_2 = Merck SeQuant ZIC-HILIC with ACN(0.1% formic acid):water(16 mM ammonium formate)211.8 seconds40023050
UniToyama_Atlantis = RP Waters Atlantis T3 (2.1 x 150 mm, 5 um) with ACN:Water and 0.1% Formic Acid3452.5 seconds40023050
BDD_C18 = Hypersil Gold 1.9µm C18 with Water:ACN and 0.1% Formic Acid1238.7 seconds40023050
UFZ_Phenomenex = Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex with Water:MeOH and 0.1% Formic Acid3027.8 seconds40023050
SNU_RIKEN_POS = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid1373.5 seconds40023050
RPMMFDA = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid769.7 seconds40023050
MTBLS87 = Merck SeQuant ZIC-pHILIC column with ACN:Water and :ammonium carbonate346.4 seconds40023050
KI_GIAR_zic_HILIC_pH2_7 = Merck SeQuant ZIC-HILIC with ACN:Water and 0.1% FA646.4 seconds40023050
Meister zic-pHILIC pH9.3 = Merck SeQuant ZIC-pHILIC column with ACN:Water 5mM NH4Ac pH9.3 and 5mM ammonium acetate in water11.2 seconds40023050

Predicted Kovats Retention Indices

Underivatized

MetaboliteSMILESKovats RI ValueColumn TypeReference
PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0)[H][C@](O)(CO)COP(O)(=O)OC[C@@]([H])(COC(=O)CC\C=C/C\C=C/C\C=C/C\C=C/C\C=C/CCCCC)OC(=O)CCCCCCCCCCCCCCC5348.7Standard polar33892256
PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0)[H][C@](O)(CO)COP(O)(=O)OC[C@@]([H])(COC(=O)CC\C=C/C\C=C/C\C=C/C\C=C/C\C=C/CCCCC)OC(=O)CCCCCCCCCCCCCCC4762.3Standard non polar33892256
PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0)[H][C@](O)(CO)COP(O)(=O)OC[C@@]([H])(COC(=O)CC\C=C/C\C=C/C\C=C/C\C=C/C\C=C/CCCCC)OC(=O)CCCCCCCCCCCCCCC5619.6Semi standard non polar33892256
Spectra

GC-MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted GC-MSPredicted GC-MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) GC-MS (TMS_1_1) - 70eV, PositiveNot Available2021-10-19Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) GC-MS (TMS_1_2) - 70eV, PositiveNot Available2021-10-19Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) GC-MS (TMS_1_3) - 70eV, PositiveNot Available2021-10-19Wishart LabView Spectrum

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) 10V, Positive-QTOFsplash10-004i-4175352900-898cc849466dee0226af2019-02-22Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) 20V, Positive-QTOFsplash10-004i-5294222400-b5b7ecb9f051b03bc9552019-02-22Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) 40V, Positive-QTOFsplash10-0c2i-9266102100-887c59e60e6f126354152019-02-22Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) 10V, Negative-QTOFsplash10-06vi-1149120500-b6417cd7a9e601fb7efa2019-02-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) 20V, Negative-QTOFsplash10-004i-6229100100-877a02530cdd2509ad262019-02-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) 40V, Negative-QTOFsplash10-004i-9011000000-eb3bfbebab923eca91652019-02-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) 10V, Negative-QTOFsplash10-0002-0000000900-9869f21529424c0a4adf2021-09-22Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) 20V, Negative-QTOFsplash10-0a6s-0179320700-8908ba5b067a32ea58f02021-09-22Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PG(22:5(4Z,7Z,10Z,13Z,16Z)/16:0) 40V, Negative-QTOFsplash10-0a92-0279320700-bea8cb3cea623e00c9332021-09-22Wishart LabView Spectrum
Biological Properties
Cellular LocationsNot Available
Biospecimen LocationsNot Available
Tissue LocationsNot Available
Pathways
Normal Concentrations
Not Available
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDNot Available
KNApSAcK IDNot Available
Chemspider ID74878423
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound131823371
PDB IDNot Available
ChEBI IDNot Available
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDNot Available
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General ReferencesNot Available