Hmdb loader
Record Information
Version5.0
StatusExpected but not Quantified
Creation Date2020-06-11 21:34:48 UTC
Update Date2022-11-30 19:53:43 UTC
HMDB IDHMDB0240678
Secondary Accession NumbersNone
Metabolite Identification
Common NameCer(d18:1/17:0)
DescriptionCer(d18:1/17:0), also known as N-heptadecanoyl-sphing-4-enine, is a ceramide (Cer). Ceramides are members of the class of compounds known as sphingolipids (SPs), or glycosylceramides. SPs are lipids containing a backbone of sphingoid bases (e.g. sphingosine or sphinganine) that are often covalently bound to a fatty acid derivative through N-acylation. SPs are found in cell membranes, particularly in peripheral nerve cells and the cells found in the central nervous system (including the brain and spinal cord). Sphingolipids are extremely versatile molecules that have functions controlling fundamental cellular processes such as cell division, differentiation, and cell death. Impairments associated with sphingolipid metabolism are associated with many common human diseases such as diabetes, various cancers, microbial infections, diseases of the cardiovascular and respiratory systems, Alzheimer’s disease and other neurological syndromes. The biosynthesis and catabolism of sphingolipids involves a large number of intermediate metabolites where many different enzymes are involved. Simple sphingolipids, which include the sphingoid bases and ceramides, make up the early products of the sphingolipid synthetic pathways, while complex sphingolipids may be formed by the addition of head groups to the ceramide template (Wikipedia). In humans, ceramides are phosphorylated to ceramide phosphates (CerPs) through the action of a specific ceramide kinase (CerK). Ceramide phosphates are important metabolites of ceramides as they act as a mediators of the inflammatory response. Ceramides are also one of the hydrolysis byproducts of sphingomyelins (SMs) through the action of the enzyme sphingomyelin phosphodiesterase, which has been identified in the subcellular fractions of human epidermis (PMID: 25935 ) and many other tissues. Ceramides can also be synthesized from serine and palmitate in a de novo pathway and are regarded as important cellular signals for inducing apoptosis (PMID: 14998372 ). Ceramides are key in the biosynthesis of glycosphingolipids and gangliosides. In terms of its appearance and structure, Cer(d18:1/17:0) is a colorless solid that consists of an unsaturated 18-carbon sphingoid base with an attached saturated heptadecanoyl fatty acid side chain. In most mammalian SPs, the 18-carbon sphingoid bases are predominant (PMID: 9759481 ).
Structure
Data?1591911447
Synonyms
ValueSource
N-(Heptadecanoyl)-sphing-4-enineChEBI
C17 CeramideHMDB
Cer D18:1/17:0HMDB
Ceramide (D18:1,C17:0)HMDB
Ceramide (D18:1/17:0)HMDB
Ceramide(D18:1/17:0)HMDB
CeramideHMDB
N-(Heptadecanoyl)-sphingosineHMDB
N-(Heptadecanoyl)-D-erythro-sphingosineHMDB
N-(Heptadecanoyl)-4-sphingenineHMDB
N-(Heptadecanoyl)-D-sphingosineHMDB
N-(Heptadecanoyl)-sphingenineHMDB
N-(Heptadecanoyl)-erythro-4-sphingenineHMDB
Cer(d18:1/17:0)ChEBI
Chemical FormulaC35H69NO3
Average Molecular Weight551.941
Monoisotopic Molecular Weight551.527745086
IUPAC NameN-[(2S,3R,4E)-1,3-dihydroxyoctadec-4-en-2-yl]heptadecanamide
Traditional NameN-[(2S,3R,4E)-1,3-dihydroxyoctadec-4-en-2-yl]heptadecanamide
CAS Registry Number67492-16-4
SMILES
[H][C@@](CO)(NC(=O)CCCCCCCCCCCCCCCC)[C@H](O)\C=C\CCCCCCCCCCCCC
InChI Identifier
InChI=1S/C35H69NO3/c1-3-5-7-9-11-13-15-17-19-21-23-25-27-29-31-35(39)36-33(32-37)34(38)30-28-26-24-22-20-18-16-14-12-10-8-6-4-2/h28,30,33-34,37-38H,3-27,29,31-32H2,1-2H3,(H,36,39)/b30-28+/t33-,34+/m0/s1
InChI KeyICWGMOFDULMCFL-QKSCFGQVSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as long-chain ceramides. These are ceramides bearing a long chain fatty acid.
KingdomOrganic compounds
Super ClassLipids and lipid-like molecules
ClassSphingolipids
Sub ClassCeramides
Direct ParentLong-chain ceramides
Alternative Parents
Substituents
  • Long-chain ceramide
  • Fatty amide
  • N-acyl-amine
  • Fatty acyl
  • Carboxamide group
  • Secondary alcohol
  • Secondary carboxylic acid amide
  • Carboxylic acid derivative
  • Primary alcohol
  • Organooxygen compound
  • Organonitrogen compound
  • Organic oxide
  • Organopnictogen compound
  • Organic oxygen compound
  • Alcohol
  • Organic nitrogen compound
  • Carbonyl group
  • Hydrocarbon derivative
  • Aliphatic acyclic compound
Molecular FrameworkAliphatic acyclic compounds
External Descriptors
Ontology
Physiological effect
Disposition
Process
RoleNot Available
Physical Properties
StateNot Available
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
logP9.66ALOGPS
logP11.31ChemAxon
logS-7.2ALOGPS
pKa (Strongest Acidic)13.62ChemAxon
pKa (Strongest Basic)-1ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count3ChemAxon
Hydrogen Donor Count3ChemAxon
Polar Surface Area69.56 ŲChemAxon
Rotatable Bond Count31ChemAxon
Refractivity170.38 m³·mol⁻¹ChemAxon
Polarizability75.22 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
DeepCCS[M+H]+244.66130932474
DeepCCS[M-H]-242.27730932474
DeepCCS[M-2H]-276.65430932474
DeepCCS[M+Na]+251.90930932474
AllCCS[M+H]+259.432859911
AllCCS[M+H-H2O]+258.732859911
AllCCS[M+NH4]+260.132859911
AllCCS[M+Na]+260.332859911
AllCCS[M-H]-244.132859911
AllCCS[M+Na-2H]-247.732859911
AllCCS[M+HCOO]-251.832859911

Predicted Kovats Retention Indices

Underivatized

MetaboliteSMILESKovats RI ValueColumn TypeReference
Cer(d18:1/17:0)[H][C@@](CO)(NC(=O)CCCCCCCCCCCCCCCC)[C@H](O)\C=C\CCCCCCCCCCCCC3526.2Standard polar33892256
Cer(d18:1/17:0)[H][C@@](CO)(NC(=O)CCCCCCCCCCCCCCCC)[C@H](O)\C=C\CCCCCCCCCCCCC3861.6Standard non polar33892256
Cer(d18:1/17:0)[H][C@@](CO)(NC(=O)CCCCCCCCCCCCCCCC)[C@H](O)\C=C\CCCCCCCCCCCCC4348.2Semi standard non polar33892256

Derivatized

Derivative Name / StructureSMILESKovats RI ValueColumn TypeReference
Cer(d18:1/17:0),1TMS,isomer #1CCCCCCCCCCCCC/C=C/[C@@H](O)[C@H](CO[Si](C)(C)C)NC(=O)CCCCCCCCCCCCCCCC4174.6Semi standard non polar33892256
Cer(d18:1/17:0),1TMS,isomer #2CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C)[C@H](CO)NC(=O)CCCCCCCCCCCCCCCC4215.5Semi standard non polar33892256
Cer(d18:1/17:0),1TMS,isomer #3CCCCCCCCCCCCC/C=C/[C@@H](O)[C@H](CO)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C4103.2Semi standard non polar33892256
Cer(d18:1/17:0),2TMS,isomer #1CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C)[C@H](CO[Si](C)(C)C)NC(=O)CCCCCCCCCCCCCCCC4198.4Semi standard non polar33892256
Cer(d18:1/17:0),2TMS,isomer #2CCCCCCCCCCCCC/C=C/[C@@H](O)[C@H](CO[Si](C)(C)C)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C4138.7Semi standard non polar33892256
Cer(d18:1/17:0),2TMS,isomer #3CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C)[C@H](CO)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C4180.2Semi standard non polar33892256
Cer(d18:1/17:0),3TMS,isomer #1CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C)[C@H](CO[Si](C)(C)C)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C4181.7Semi standard non polar33892256
Cer(d18:1/17:0),3TMS,isomer #1CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C)[C@H](CO[Si](C)(C)C)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C3937.8Standard non polar33892256
Cer(d18:1/17:0),3TMS,isomer #1CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C)[C@H](CO[Si](C)(C)C)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C4001.1Standard polar33892256
Cer(d18:1/17:0),1TBDMS,isomer #1CCCCCCCCCCCCC/C=C/[C@@H](O)[C@H](CO[Si](C)(C)C(C)(C)C)NC(=O)CCCCCCCCCCCCCCCC4438.2Semi standard non polar33892256
Cer(d18:1/17:0),1TBDMS,isomer #2CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C(C)(C)C)[C@H](CO)NC(=O)CCCCCCCCCCCCCCCC4463.9Semi standard non polar33892256
Cer(d18:1/17:0),1TBDMS,isomer #3CCCCCCCCCCCCC/C=C/[C@@H](O)[C@H](CO)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C(C)(C)C4351.4Semi standard non polar33892256
Cer(d18:1/17:0),2TBDMS,isomer #1CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C(C)(C)C)[C@H](CO[Si](C)(C)C(C)(C)C)NC(=O)CCCCCCCCCCCCCCCC4712.6Semi standard non polar33892256
Cer(d18:1/17:0),2TBDMS,isomer #2CCCCCCCCCCCCC/C=C/[C@@H](O)[C@H](CO[Si](C)(C)C(C)(C)C)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C(C)(C)C4613.7Semi standard non polar33892256
Cer(d18:1/17:0),2TBDMS,isomer #3CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C(C)(C)C)[C@H](CO)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C(C)(C)C4632.0Semi standard non polar33892256
Cer(d18:1/17:0),3TBDMS,isomer #1CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C(C)(C)C)[C@H](CO[Si](C)(C)C(C)(C)C)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C(C)(C)C4916.4Semi standard non polar33892256
Cer(d18:1/17:0),3TBDMS,isomer #1CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C(C)(C)C)[C@H](CO[Si](C)(C)C(C)(C)C)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C(C)(C)C4359.4Standard non polar33892256
Cer(d18:1/17:0),3TBDMS,isomer #1CCCCCCCCCCCCC/C=C/[C@@H](O[Si](C)(C)C(C)(C)C)[C@H](CO[Si](C)(C)C(C)(C)C)N(C(=O)CCCCCCCCCCCCCCCC)[Si](C)(C)C(C)(C)C4194.0Standard polar33892256
Spectra

GC-MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS ("Cer(d18:1/17:0),1TMS,#1" TMS) - 70eV, PositiveNot Available2021-10-14Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TMS_1_1) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TMS_1_2) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TMS_1_3) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TMS_2_1) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TMS_2_2) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TMS_2_3) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TBDMS_1_1) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TBDMS_1_2) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TBDMS_1_3) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TBDMS_2_1) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TBDMS_2_2) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cer(d18:1/17:0) GC-MS (TBDMS_2_3) - 70eV, PositiveNot Available2021-10-15Wishart LabView Spectrum

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cer(d18:1/17:0) 10V, Negative-QTOFsplash10-0udi-0000090000-117b0bd831da4956f07d2021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cer(d18:1/17:0) 20V, Negative-QTOFsplash10-0udi-0010090000-5c9e08bc5c8268990d1d2021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cer(d18:1/17:0) 40V, Negative-QTOFsplash10-0vi0-0040090000-47fbf94ce1944532d39a2021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cer(d18:1/17:0) 10V, Positive-QTOFsplash10-0a4i-0000090000-05ad2b5f9db536798ac52021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cer(d18:1/17:0) 20V, Positive-QTOFsplash10-0a4i-0000090000-05ad2b5f9db536798ac52021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cer(d18:1/17:0) 40V, Positive-QTOFsplash10-0006-0000090000-2bad94118204b12f1d572021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cer(d18:1/17:0) 10V, Positive-QTOFsplash10-0udi-0000090000-bdebdf224d694832d1b92021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cer(d18:1/17:0) 20V, Positive-QTOFsplash10-0w29-0050090000-84a37fa9d83b495f7c702021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cer(d18:1/17:0) 40V, Positive-QTOFsplash10-01q9-0090060000-24a9f09ca035fcda36162021-09-24Wishart 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 ID24715876
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound44584335
PDB IDNot Available
ChEBI ID86513
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 References
  1. Bowser PA, Gray GM: Sphingomyelinase in pig and human epidermis. J Invest Dermatol. 1978 Jun;70(6):331-5. [PubMed:25935 ]
  2. Tserng KY, Griffin RL: Ceramide metabolite, not intact ceramide molecule, may be responsible for cellular toxicity. Biochem J. 2004 Jun 15;380(Pt 3):715-22. [PubMed:14998372 ]