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Record Information
Version3.6
Creation Date2005-11-16 15:48:42 UTC
Update Date2013-02-09 00:10:38 UTC
HMDB IDHMDB01480
Secondary Accession NumbersNone
Metabolite Identification
Common Name3-Dehydrosphinganine
Description3-Dehydrosphinganine is an intermediate in the metabolism of Glycosphingolipids. It is a substrate for Serine palmitoyltransferase 1 and Serine palmitoyltransferase 2.
Structure
Thumb
Synonyms
  1. (2S)-2-amino-1-hydroxyoctadecan-3-one
  2. 1-Hydroxy-2-amino-3-oxo-octadecane
  3. 2-Amino-1-hydroxy-3-Octadecanone
  4. 3-Dehydro-D-sphinganine
  5. 3-Dehydrosphinganine
  6. 3-Ketodihydrosphingosine
  7. 3-Ketosphinganine
  8. KDHS
  9. Ketodihydrosphingosine
Chemical FormulaC18H37NO2
Average Molecular Weight299.4919
Monoisotopic Molecular Weight299.282429433
IUPAC Name(2S)-2-amino-1-hydroxyoctadecan-3-one
Traditional IUPAC Name3-ketosphinganine
CAS Registry Number16105-69-4
SMILES
CCCCCCCCCCCCCCCC(=O)[C@@H](N)CO
InChI Identifier
InChI=1S/C18H37NO2/c1-2-3-4-5-6-7-8-9-10-11-12-13-14-15-18(21)17(19)16-20/h17,20H,2-16,19H2,1H3/t17-/m0/s1
InChI KeyKBUNOSOGGAARKZ-KRWDZBQOSA-N
Chemical Taxonomy
KingdomOrganic Compounds
Super ClassLipids
ClassSphingolipids
Sub ClassN/A
Other Descriptors
  • 2-amino-1-hydroxyoctadecan-3-one(ChEBI)
  • Aliphatic Acyclic Compounds
  • Sphing-4-enines (Sphingosines)(KEGG)
  • Sphinganines(Lipidmaps)
Substituents
  • 1,2 Aminoalcohol
  • Alpha Aminoketone
  • Beta Ketoaldehyde
  • Ketone
  • Primary Alcohol
  • Primary Aliphatic Amine (Alkylamine)
Direct ParentSphingolipids
Ontology
StatusExpected and Not Quantified
Origin
  • Endogenous
  • Food
Biofunction
  • Cell signaling
  • Component of Glycosphingolipid metabolism
  • Fuel and energy storage
  • Fuel or energy source
  • Membrane integrity/stability
Application
  • Nutrients
  • Stabilizers
  • Surfactants and Emulsifiers
Cellular locations
  • Cytoplasm
  • Extracellular
  • Membrane (predicted from logP)
Physical Properties
StateSolid
Experimental Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Predicted Properties
PropertyValueSource
water solubility0.0013 g/LALOGPS
logP5.45ALOGPS
logP5.18ChemAxon
logS-5.4ALOGPS
pKa (strongest acidic)14.38ChemAxon
pKa (strongest basic)7.54ChemAxon
physiological charge1ChemAxon
hydrogen acceptor count3ChemAxon
hydrogen donor count2ChemAxon
polar surface area63.32ChemAxon
rotatable bond count16ChemAxon
refractivity90.03ChemAxon
polarizability39.56ChemAxon
Spectra
SpectraNot Available
Biological Properties
Cellular Locations
  • Cytoplasm
  • Extracellular
  • Membrane (predicted from logP)
Biofluid LocationsNot Available
Tissue LocationNot Available
Pathways
NameSMPDB LinkKEGG Link
Sphingolipid MetabolismSMP00034map00500
Normal Concentrations
Not Available
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
DrugBank Metabolite IDNot Available
Phenol Explorer Compound IDNot Available
Phenol Explorer Metabolite IDNot Available
FoodDB IDFDB022645
KNApSAcK IDNot Available
Chemspider ID388895
KEGG Compound IDC02934
BioCyc IDDEHYDROSPHINGANINE
BiGG ID1453300
Wikipedia LinkNot Available
NuGOwiki LinkHMDB01480
Metagene LinkHMDB01480
METLIN ID3428
PubChem Compound439853
PDB IDNot Available
ChEBI ID17862
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General ReferencesNot Available

Enzymes

General function:
Involved in transferase activity, transferring hexosyl groups
Specific function:
Catalyzes the formation of some glycolipid via the addition of N-acetylgalactosamine (GalNAc) in alpha-1,3-linkage to some substrate. Glycolipids probably serve for adherence of some pathogens
Gene Name:
GBGT1
Uniprot ID:
Q8N5D6
Molecular weight:
40126.9
General function:
Involved in N-acetylglucosaminylphosphatidylinositol de
Specific function:
Involved in the second step of GPI biosynthesis. De-N-acetylation of N-acetylglucosaminyl-phosphatidylinositol.
Gene Name:
PIGL
Uniprot ID:
Q9Y2B2
Molecular weight:
28530.965
General function:
Involved in transferase activity, transferring nitrogenous groups
Specific function:
Serine palmitoyltransferase (SPT). The heterodimer formed with SPTLC2 or SPTLC3 constitutes the catalytic core. The composition of the serine palmitoyltransferase (SPT) complex determines the substrate preference. The SPTLC1-SPTLC2-SPTSSA complex shows a strong preference for C16-CoA substrate, while the SPTLC1-SPTLC3-SPTSSA isozyme uses both C14-CoA and C16-CoA as substrates, with a slight preference for C14-CoA. The SPTLC1-SPTLC2-SPTSSB complex shows a strong preference for C18-CoA substrate, while the SPTLC1-SPTLC3-SPTSSB isozyme displays an ability to use a broader range of acyl-CoAs, without apparent preference.
Gene Name:
SPTLC1
Uniprot ID:
O15269
Molecular weight:
52743.41
Reactions
hexadecanoyl-CoA + L-Serine → Coenzyme A + 3-Dehydrosphinganine + CO(2)details
hexadecanoyl-CoA + L-Serine → 3-Dehydrosphinganine + Coenzyme A + Carbon dioxidedetails
General function:
Involved in transferase activity
Specific function:
Serine palmitoyltransferase (SPT). The heterodimer formed with LCB1/SPTLC1 constitutes the catalytic core. The composition of the serine palmitoyltransferase (SPT) complex determines the substrate preference. The SPTLC1-SPTLC2-SPTSSA complex shows a strong preference for C16-CoA substrate, while the SPTLC1-SPTLC2-SPTSSB complex displays a preference for C18-CoA substrate.
Gene Name:
SPTLC2
Uniprot ID:
O15270
Molecular weight:
62923.765
Reactions
hexadecanoyl-CoA + L-Serine → Coenzyme A + 3-Dehydrosphinganine + CO(2)details
hexadecanoyl-CoA + L-Serine → 3-Dehydrosphinganine + Coenzyme A + Carbon dioxidedetails
General function:
Involved in phosphatidylinositol N-acetylglucosaminyltransferase activity
Specific function:
Part of the complex catalyzing the transfer of N-acetylglucosamine from UDP-N-acetylglucosamine to phosphatidylinositol, the first step of GPI biosynthesis.
Gene Name:
PIGQ
Uniprot ID:
Q9BRB3
Molecular weight:
65343.25
General function:
Involved in biosynthetic process
Specific function:
Necessary for the synthesis of N-acetylglucosaminyl-phosphatidylinositol, the very early intermediate in GPI-anchor biosynthesis.
Gene Name:
PIGA
Uniprot ID:
P37287
Molecular weight:
54126.065
General function:
Involved in phosphatidylinositol N-acetylglucosaminyltr
Specific function:
Part of the complex catalyzing the transfer of N-acetylglucosamine from UDP-N-acetylglucosamine to phosphatidylinositol, the first step of GPI biosynthesis.
Gene Name:
PIGH
Uniprot ID:
Q14442
Molecular weight:
21080.415
General function:
Involved in phosphatidylinositol N-acetylglucosaminyltr
Specific function:
Part of the complex catalyzing the transfer of N-acetylglucosamine from UDP-N-acetylglucosamine to phosphatidylinositol, the first step of GPI biosynthesis.
Gene Name:
PIGP
Uniprot ID:
P57054
Molecular weight:
18089.055
General function:
Involved in phosphatidylinositol N-acetylglucosaminyltransferase activity
Specific function:
Part of the complex catalyzing the transfer of N-acetylglucosamine from UDP-N-acetylglucosamine to phosphatidylinositol, the first step of GPI biosynthesis.
Gene Name:
PIGC
Uniprot ID:
Q92535
Molecular weight:
33582.18
General function:
Involved in sphingolipid activator protein activity
Specific function:
Binds gangliosides and stimulates ganglioside GM2 degradation. It stimulates only the breakdown of ganglioside GM2 and glycolipid GA2 by beta-hexosaminidase A. It extracts single GM2 molecules from membranes and presents them in soluble form to beta-hexosaminidase A for cleavage of N-acetyl-D-galactosamine and conversion to GM3
Gene Name:
GM2A
Uniprot ID:
P17900
Molecular weight:
20838.1
General function:
Involved in immune response
Specific function:
T-cell surface glycoprotein CD1e, soluble is required for the presentation of glycolipid antigens on the cell surface. The membrane-associated form is not active
Gene Name:
CD1E
Uniprot ID:
P15812
Molecular weight:
43626.1
General function:
Involved in cholesterol binding
Specific function:
May be involved in the regulation of the lipid composition of sperm membranes during the maturation in the epididymis
Gene Name:
NPC2
Uniprot ID:
P61916
Molecular weight:
16570.1
General function:
Involved in immune response
Specific function:
Antigen-presenting protein that binds self and non-self glycolipids and presents them to T-cell receptors on natural killer T-cells
Gene Name:
CD1D
Uniprot ID:
P15813
Molecular weight:
37717.0
General function:
Involved in transferase activity, transferring hexosyl groups
Specific function:
Mannosyltransferase involved in glycosylphosphatidylinositol-anchor biosynthesis. Transfers the first alpha-1,4-mannose to GlcN-acyl-PI during GPI precursor assembly
Gene Name:
PIGM
Uniprot ID:
Q9H3S5
Molecular weight:
49459.2
General function:
Involved in transferase activity, transferring acyl groups
Specific function:
Probable acetyltransferase, which acetylates the inositol ring of phosphatidylinositol during biosynthesis of GPI-anchor. Acetylation during GPI-anchor biosynthesis is not essential for the subsequent mannosylation and is usually removed soon after the attachment of GPIs to proteins (By similarity).
Gene Name:
PIGW
Uniprot ID:
Q7Z7B1
Molecular weight:
Not Available
General function:
Involved in oxidoreductase activity
Specific function:
Catalyzes the reduction of 3-ketodihydrosphingosine (KDS) to dihydrosphingosine (DHS).
Gene Name:
KDSR
Uniprot ID:
Q06136
Molecular weight:
36186.785
Reactions
Sphinganine + NADP → 3-Dehydrosphinganine + NADPHdetails
Sphinganine + NADP → 3-Dehydrosphinganine + NADPH + Hydrogen Iondetails
General function:
Involved in GPI anchor biosynthetic process
Specific function:
Essential component of glycosylphosphatidylinositol- mannosyltransferase 1 which transfers the first of the 4 mannoses in the GPI-anchor precursors during GPI-anchor biosynthesis. Probably acts by stabilizing the mannosyltransferase PIGM
Gene Name:
PIGX
Uniprot ID:
Q8TBF5
Molecular weight:
28788.1
General function:
Involved in transferase activity, transferring glycosyl groups
Specific function:
Mannosyltransferase involved in glycosylphosphatidylinositol-anchor biosynthesis. Transfers a fourth mannose to some trimannosyl-GPIs during GPI precursor assembly. The presence of a fourth mannose in GPI is facultative and only scarcely detected, suggesting that it only exists in some tissues
Gene Name:
PIGZ
Uniprot ID:
Q86VD9
Molecular weight:
63472.6
General function:
Involved in galactosyltransferase activity
Specific function:
Beta-1,3-N-acetylglucosaminyltransferase that plays a key role in the synthesis of lacto- or neolacto-series carbohydrate chains on glycolipids, notably by participating in biosynthesis of HNK-1 and Lewis X carbohydrate structures. Has strong activity toward lactosylceramide (LacCer) and neolactotetraosylceramide (nLc(4)Cer; paragloboside), resulting in the synthesis of Lc(3)Cer and neolactopentaosylceramide (nLc(5)Cer), respectively. Probably plays a central role in regulating neolacto-series glycolipid synthesis during embryonic development.
Gene Name:
B3GNT5
Uniprot ID:
Q9BYG0
Molecular weight:
44052.295
General function:
Involved in galactosyltransferase activity
Specific function:
Catalyzes the transfer of Gal to GlcNAc-based acceptors with a preference for the core3 O-linked glycan GlcNAc(beta1,3)GalNAc structure. Can use glycolipid LC3Cer as an efficient acceptor
Gene Name:
B3GALT5
Uniprot ID:
Q9Y2C3
Molecular weight:
36188.9
General function:
Involved in transferase activity, transferring glycosyl groups
Specific function:
Mannosyltransferase involved in glycosylphosphatidylinositol-anchor biosynthesis. Transfers the third alpha-1,2-mannose to Man2-GlcN-acyl-PI during GPI precursor assembly
Gene Name:
PIGB
Uniprot ID:
Q92521
Molecular weight:
65055.9
General function:
Involved in GPI anchor biosynthetic process
Specific function:
Involved in GPI-anchor biosynthesis through the transfer of ethanolamine phosphate to the third mannose of GPI
Gene Name:
PIGF
Uniprot ID:
Q07326
Molecular weight:
24889.3
General function:
Involved in catalytic activity
Specific function:
Ethanolamine phosphate transferase involved in glycosylphosphatidylinositol-anchor biosynthesis. Transfers ethanolamine phosphate to the GPI second mannose
Gene Name:
PIGG
Uniprot ID:
Q5H8A4
Molecular weight:
108171.7
General function:
Involved in catalytic activity
Specific function:
Ethanolamine phosphate transferase involved in glycosylphosphatidylinositol-anchor biosynthesis. Transfers ethanolamine phosphate to the first alpha-1,4-linked mannose of the glycosylphosphatidylinositol precursor of GPI-anchor
Gene Name:
PIGN
Uniprot ID:
O95427
Molecular weight:
105809.2
General function:
Involved in catalytic activity
Specific function:
Ethanolamine phosphate transferase involved in glycosylphosphatidylinositol-anchor biosynthesis. Transfers ethanolamine phosphate to the GPI third mannose which links the GPI-anchor to the C-terminus of the proteins by an amide bond
Gene Name:
PIGO
Uniprot ID:
Q8TEQ8
Molecular weight:
118697.6
General function:
Involved in protein binding
Specific function:
Component of the GPI transamidase complex. Essential for transfer of GPI to proteins, particularly for formation of carbonyl intermediates
Gene Name:
PIGS
Uniprot ID:
Q96S52
Molecular weight:
61655.5
General function:
Involved in protein binding
Specific function:
Component of the GPI transamidase complex. Essential for transfer of GPI to proteins, particularly for formation of carbonyl intermediates
Gene Name:
PIGT
Uniprot ID:
Q969N2
Molecular weight:
65699.0
General function:
Involved in GPI anchor biosynthetic process
Specific function:
Component of the GPI transamidase complex. May be involved in the recognition of either the GPI attachment signal or the lipid portion of GPI
Gene Name:
PIGU
Uniprot ID:
Q9H490
Molecular weight:
50051.2
General function:
Involved in transferase activity, transferring hexosyl groups
Specific function:
Alpha-1,6-mannosyltransferase involved in glycosylphosphatidylinositol-anchor biosynthesis. Transfers the second mannose to the glycosylphosphatidylinositol during GPI precursor assembly
Gene Name:
PIGV
Uniprot ID:
Q9NUD9
Molecular weight:
55712.1
General function:
Involved in GPI anchor biosynthetic process
Specific function:
Component of the GPI-GlcNAc transferase (GPI-GnT) complex in the endoplasmic reticulum, a complex that catalyzes transfer of GlcNAc from UDP-GlcNAc to an acceptor phosphatidylinositol, the first step in the production of GPI- anchors for cell surface proteins. May act by regulating the catalytic subunit PIGA
Gene Name:
PIGY
Uniprot ID:
Q3MUY2
Molecular weight:
8057.5
General function:
Involved in glycolipid transporter activity
Specific function:
Involved in TGN-to-plasma membrane transport and in the formation of post-Golgi constitutive carriers. May play a role in ensuring the coordination of the budding and the fission reactions
Gene Name:
PLEKHA8
Uniprot ID:
Q96JA3
Molecular weight:
58306.0
General function:
Involved in transferase activity
Specific function:
Serine palmitoyltransferase (SPT). The heterodimer formed with LCB1/SPTLC1 constitutes the catalytic core. The composition of the serine palmitoyltransferase (SPT) complex determines the substrate preference. The SPTLC1-SPTLC3-SPTSSA isozyme uses both C14-CoA and C16-CoA as substrates, while the SPTLC1-SPTLC3-SPTSSB has the ability to use a broader range of acyl-CoAs without apparent preference.
Gene Name:
SPTLC3
Uniprot ID:
Q9NUV7
Molecular weight:
62049.035
Reactions
hexadecanoyl-CoA + L-Serine → Coenzyme A + 3-Dehydrosphinganine + CO(2)details
hexadecanoyl-CoA + L-Serine → 3-Dehydrosphinganine + Coenzyme A + Carbon dioxidedetails
General function:
Involved in catalytic activity
Specific function:
Non-lysosomal glucosylceramidase that catalyzes the conversion of glucosylceramide to free glucose and ceramide. Involved in sphingomyelin generation and prevention of glycolipid accumulation. May also catalyze the hydrolysis of bile acid 3-O-glucosides, however, the relevance of such activity is unclear in vivo.
Gene Name:
GBA2
Uniprot ID:
Q9HCG7
Molecular weight:
104648.13
General function:
Involved in cysteine-type endopeptidase activity
Specific function:
Mediates GPI anchoring in the endoplasmic reticulum, by replacing a protein's C-terminal GPI attachment signal peptide with a pre-assembled GPI. During this transamidation reaction, the GPI transamidase forms a carbonyl intermediate with the substrate protein
Gene Name:
PIGK
Uniprot ID:
Q92643
Molecular weight:
45251.4
General function:
Involved in tubulin binding
Specific function:
Essential for GPI-anchoring of precursor proteins but not for GPI synthesis. Acts before or during formation of the carbonyl intermediate
Gene Name:
GPAA1
Uniprot ID:
O43292
Molecular weight:
67622.5
General function:
Involved in glycolipid transporter activity
Specific function:
Not Available
Gene Name:
PLEKHA9
Uniprot ID:
O95397
Molecular weight:
43538.3
General function:
Involved in glycolipid transporter activity
Specific function:
Not Available
Gene Name:
GLTPD2
Uniprot ID:
A6NH11
Molecular weight:
31641.2
General function:
Involved in glycolipid transporter activity
Specific function:
Not Available
Gene Name:
PLEKHA8
Uniprot ID:
B5MDU3
Molecular weight:
49308.8
General function:
Involved in immune response
Specific function:
Antigen-presenting protein that binds self and non-self lipid and glycolipid antigens and presents them to T-cell receptors on natural killer T-cells
Gene Name:
CD1A
Uniprot ID:
P06126
Molecular weight:
37077.1
General function:
Involved in glycolipid transporter activity
Specific function:
Not Available
Gene Name:
GLTPD1
Uniprot ID:
Q5TA50
Molecular weight:
24364.8
General function:
Involved in immune response
Specific function:
Antigen-presenting protein that binds self and non-self lipid and glycolipid antigens and presents them to T-cell receptors on natural killer T-cells
Gene Name:
CD1C
Uniprot ID:
P29017
Molecular weight:
37653.7
General function:
Involved in lipid binding
Specific function:
Binds to the lipid A moiety of bacterial lipopolysaccharides (LPS), a glycolipid present in the outer membrane of all Gram-negative bacteria. The LBP/LPS complex seems to interact with the CD14 receptor
Gene Name:
LBP
Uniprot ID:
P18428
Molecular weight:
53383.0
General function:
Involved in glycolipid transporter activity
Specific function:
Not Available
Gene Name:
DKFZp434L0435
Uniprot ID:
Q9UFH6
Molecular weight:
6175.1
General function:
Involved in immune response
Specific function:
Antigen-presenting protein that binds self and non-self lipid and glycolipid antigens and presents them to T-cell receptors on natural killer T-cells
Gene Name:
CD1B
Uniprot ID:
P29016
Molecular weight:
36939.1
General function:
Involved in glycolipid transporter activity
Specific function:
Accelerates the intermembrane transfer of various glycolipids. Catalyzes the transfer of various glycosphingolipids between membranes but does not catalyze the transfer of phospholipids. May be involved in the intracellular translocation of glucosylceramides
Gene Name:
GLTP
Uniprot ID:
Q9NZD2
Molecular weight:
23849.6