LIPE (lipase E, hormone sensitive type)

2018-02-01   Seher Gök 

Scientific and Research Council of TURKEY, Ankara, Turkey; seher.gok@tubitak.gov.tr

Identity

HGNC
LOCATION
The human LIPE gene is located on 19q13.2 [Link to chromosome band 19q13]
IMAGE
Atlas Image
LEGEND
Figure 1. Gene neighbours of LIPE on chromosome 19q13.2 (NCBI Annotation Release 108)
LOCUSID
ALIAS
AOMS4,FPLD6,HSL,LHS,REH

Abstract

Review on LIPE, with data on DNA, on the protein encoded and where the gene is implicated

DNA/RNA

Description

Orientation: Minus strand; 25,920 bases; Exon count: 31 (NCBI Homo sapiens Annotation Release 108) (Table 1).
Table 1.     31 Exons and their locations for LIPE (from Ensembl)
Gene Id  Exon IdChromosome Strand Exon Start  Exon End
ENSG00000079435  ENSE00001194800  19-42401507  42402075
ENSG00000079435  ENSE00003091115  19-42401816  42402075
ENSG00000079435  ENSE00003004228  19-42402037  42402075
ENSG00000079435  ENSE00003029968  19-42402607  42403055
ENSG00000079435  ENSE00000709262  19-42402607  42403031
ENSG00000079435  ENSE00003099674  19-42402673  42403031
ENSG00000079435  ENSE00000709260  19-42405385  42405561
ENSG00000079435  ENSE00003199240  19-42405385  42405837
ENSG00000079435  ENSE00003007563  19-42406161  42406319
ENSG00000079435  ENSE00000709257  19-42406161  42406388
ENSG00000079435  ENSE00003076590  19-42407174  42407226
ENSG00000079435  ENSE00000709254  19-42407174  42407468
ENSG00000079435  ENSE00003124417  19-42407400  42407468
ENSG00000079435  ENSE00003630092  19-42407606  42407791
ENSG00000079435  ENSE00003654406  19-42407606  42407791
ENSG00000079435  ENSE00003603624  19-42407976  42408121
ENSG00000079435  ENSE00003477031  19-42407976  42408121
ENSG00000079435  ENSE00003202428  19-42408087  42408121
ENSG00000079435  ENSE00003018018  19-42408095  42408121
ENSG00000079435  ENSE00003693446  19-42408232  42408322
ENSG00000079435  ENSE00003608280  19-42408232  42408322
ENSG00000079435  ENSE00003146825  19-42408311  42408322
ENSG00000079435  ENSE00003530964  19-42410307  42410842
ENSG00000079435  ENSE00003532609  19-42410307  42410842
ENSG00000079435  ENSE00003170038  19-42410582  42410842
ENSG00000079435  ENSE00003219943  19-42412274  42412347
ENSG00000079435  ENSE00003155428  19-42412365  42412448
ENSG00000079435  ENSE00003063620  19-42422993  42423222
ENSG00000079435  ENSE00003095994  19-42422993  42423203
ENSG00000079435  ENSE00003221897  19-42423419  42424123
ENSG00000079435  ENSE00001162583  19-42426267  42427426

Transcription

Human LIPE gene has 9 transcripts (Table 2).
Table 2.     Transcripts of human LIPE gene (Ensembl annotation Release 85)
Name  Transcript ID  bp  Translation ID  Protein  Biotype
LIPE-201  ENST00000244289.8  3813  ENSP00000244289  1076aa  Protein coding
LIPE-205  ENST00000599783.5  1367  ENSP00000469990  260aa  Protein coding
LIPE-203  ENST00000597620.5  915  ENST00000597620  305aa  Protein coding
LIPE-206  ENST00000599918.1  824  ENST00000599918  275aa  Protein coding
LIPE-202  ENST00000597001.1  759  ENSP00000469268  176aa  Protein coding
LIPE-204  ENST00000599211.1  738  ENSP00000472531  222aa  Protein coding
LIPE-208  ENST00000601189.1  335  ENSP00000469030  80aa  Protein coding
LIPE-209  ENST00000602000.1  722  _  No protein  Processed transcript
LIPE-207  ENST00000600224.1  812  _  No Protein  Retained intron 

Pseudogene

LOC106780900 hormone-sensitive lipase pseudogene [Equus caballus (horse)] (NCBI Equus caballus Annotation Release 103)

Proteins

Note

LIPE plays a crucial role in acylglycerol and cholesteryl ester hydrolysis in adipose tissue and exhibits cholesterol hydrolase activity in steroidogenic tissue and macrophages.

Description

LIPE is highly expressed in adipose tissue as well as in heart and skeletal muscle, pancreatic β-cells, placenta, adrenal glands, ovary and testis (Haemmerle et al., 2003). 2 isoforms produced by alternative splicing (Yeamen et, al., 2004; Holst et al., 1996). Isoform 1 : Testicular form also known as canonical sequence, composed of 1,076 amino acids, has 116,598 Da molecular mass.
Two testicular forms of LIPE have been characterized (Stenson et al., 1996 ; Mairal et al., 2002). The 3.9 kb mRNA encodes a 1,076 amino acid protein that contains a unique NH2-terminal region encoded by exon T1. The 3.3 kb mRNA encodes a protein that is identical to the adipocyte LIPE form. However, the mRNA species differ in their 5 ends. Exon usage is mutually exclusive; exon T2 is only transcribed in testis, and exon B is only transcribed in Adipose tissue (Lucas et al., 2003).
Isoform 2 : Adipocyte form, composed of 775 amino acids encoded by 9 exons, has 84,128 Da molecular mass.
Atlas Image
Figure 2. Genomic organization of the LIPE gene coding sequences (red boxes) and untranslated regions (grey boxes). Exons T1 and T2 are used in testis. Exons A and B are used in the colon adenocarcinoma cell line HT29 and adipose tissue, respectively. Exons 1 to 9 are used in all tissues expressing LIPE (adapted from Lucas et al., 2003).

Expression

A 3.3-kb transcript was detected in mammary gland, adrenal gland, adipose tissue and muscle, and both a 3.3 and 3.9 kb transcripts were found in testis (Holst et al. 1996). RNA-seq data from 95 human individuals representing 27 different tissues reveal biased expression in fat and testis (BioProject: PRJEB4337) (Figure 2).
Atlas Image
Figure 3. LIPE tissue expression. RNA-seq data from 27 tissues are reported as mean RPKM (Reads Per Kilobase Million), corresponding to mean values of the different individual samples from each tissue type.

Localisation

Found in cell membrane (UniProtKB-SubCell), cytosol (HPA), lipid droplet (UniProtKB-SubCell) and high density caveolae (UniProtKB-SubCell). Translocates to the cytoplasm from the caveolae upon insulin stimulation for lipolysis activation (Egan et al., 1992).

Function

Hormone sensitive lipase is a lipolytic enzyme of the GDXG family catalyzing the rate limiting step of diacylglycerol and monoacylglycerol lipolysis (Stralfors et al., 1978). In adipose tissue and heart, it primarily hydrolyzes stored triglycerides to free fatty acids, while in steroidogenic tissues, it principally converts cholesteryl esters to free cholesterol for steroid hormone production. LIPE is a multifunctional enzyme catalyzing (GO_REF:0000003);
Diacylglycerol + H2O = monoacylglycerol + a carboxylate.
Triacylglycerol + H2O = diacylglycerol + a carboxylate.
Monoacylglycerol + H2O = glycerol + a carboxylate.
Enzyme is regulated post-transcriptionally. LIPE is rapidly activated by cAMP-dependent phosphorylation under the influence of catecholamines. Dephosphorylation and inactivation via protein phosphatases or inhibition of protein kinases, are controlled by insulin (Yeamen et al., 1994). Ser 659 and Ser 660 have been shown as phosphorylation sites, for in vitro activation of LIPE (Anthonsen et al., 1998).
Also it has protein binding and protein kinase binding function interacting selectively and non-covalently with any protein of protein complex (Aboulaich et al., 2006).

Homology

LIPE gene is conserved in chimpanzee, dog, cow, mouse, rat, zebrafish and frog (Table 3).
Table 3.    Pairwise alignment of LIPE gene and protein sequences (in distance from human) 
GeneIdentity %
SpeciesSymbolProteinDNA
H. SapiensLIPE
vs. P.troglodytesLIPE99.099.3
vs. C.lupusLIPE80.284.0
vs. B.taurusLIPE85.986.2
vs. M.musculusLipe84.382.0
vs. R.norvegicusLipe74.978.1
vs. X.tropicalislipe62.762.3
vs. D.rerirolipeb61.761.5

Mutations

Note

198 missense, 12 truncating and 2 inframe mutations of LIPE (cBioPortal).
Atlas Image
Figure 4. Mutation types observed in LIPE expression in literature and corresponding color codes are as follows: Green: Missense Mutations, Black: Truncating Mutations: Nonsense, Nonstop, Frameshift deletion, Frameshift insertion, Splice site, Brown: Inframe Mutations: Inframe deletion, Inframe insertion, Purple: Other Mutations: All other types of mutations

Somatic

LIPE has 3543 SNPs (Ensembl).
Arg 309 Cyc polymorphism is associated with an increased serum cholesterol levels and type 2 diabetes (Shimada et al. 1996).
LIPE i6(CA)n repeat polymorphism is associated with type 2 diabetes and obesity (Magré et al. 1998). The C-60 G polymorphism is located in the promoter region of the LIPE and it is possible that the substitution of C with G nucleotide result in a decrease in gene expression (Talmud et al. 2001). The C-60 G polymorphism in the promoter of LIPE is associated with body composition and waist circumference (Garenc et al. 2002; Carlsson et al. 2006). In addition, the C-60 G allele male carriers present lower levels of fasting non-esterified fatty acid and higher levels of low density lipoprotein cholesterol (Talmud et al. 2001).

Implicated in

Entity name
Lipodystrophy, Familial Partial, 6 (FPLD6)
Disease
A form of lipodystrophy characterized by abnormal subcutaneous fat distribution. Affected individuals have increased visceral fat, impaired lipolysis, dyslipidemia, hepatic steatosis, systemic insulin resistance, and diabetes. Some patients manifest muscular dystrophy (OMIM:615980).
Cytogenetics
Autosomal recessive. Caused by homozygous mutation in the LIPE gene. Genomewide autozygosity mapping and whole-exome sequencing, identified homozygosity for a 2bp insertion in the LIPE gene (Farhan et al. 2014). The mutation caused a frameshift within the hormone-sensitive lipase domain predicted to result in a premature termination codon with an approximately 50% loss of the original polypeptide.
Entity name
Non-alcoholic Fatty Liver Disease (NAFLD)
Disease
NAFLD, defined as hepatic steatosis with an intrahepatic triglyceride (TG) content?>?5% of the liver volume or weight, develops owing to an imbalance between fatty acid (FA) input and output.
Cytogenetics
In glucose intolerance state, LIPE promoter (CC + GG) contributed the greatest impact on raising serum triglyceride followed by fatty liver and Adipose insulin resistance (Hsiao et al., 2013).
Entity name
Multiple Symmetric Lipomatosis
Disease
Rare condition characterized by the symmetric growth of fatty tumors (lipomas) around the neck, shoulders, upper arms and/or upper trunk. It most often affects men of mediterranean ancestry between the ages of 30 and 70 who have a history of alcohol abuse. The signs and symptoms vary greatly from person to person. Usually, accumulation of fatty tissue increases over time and may lead to a loss of neck mobility and pain. The lipomas can cause physical deformity and peripheral neuropathy, when they compress a nerve.
Cytogenetics
Exome sequencing identified a novel homozygous NC_000019.9:g.42906092C>A variant on chromosome 19, leading to a NM_005357.3:c.3103G>T nucleotide change in coding DNA and corresponding p.(Glu1035*) protein change in LIPE gene as the disease-causing variant (Zolotov et al., 2017).
Entity name
Various Cancers
Note
LIPE gene expression is altered in number of cancers.
Cytogenetics
Search in cBioPortal showed that LIPE is altered in 461 (1.1%) of 40567 sequenced cases / patients (Figure 5).
Atlas Image
Figure 5. Alteration frequency percentages for indicated cancer types from TCGA (The Cancer Genome Atlas).

Bibliography

Pubmed IDLast YearTitleAuthors
170269592006Association and insulin regulated translocation of hormone-sensitive lipase with PTRF.Aboulaich N et al
94170671998Identification of novel phosphorylation sites in hormone-sensitive lipase that are phosphorylated in response to isoproterenol and govern activation properties in vitro.Anthonsen MW et al
165345222006The hormone-sensitive lipase C-60G promoter polymorphism is associated with increased waist circumference in normal-weight subjects.Carlsson E et al
15288591992Mechanism of hormone-stimulated lipolysis in adipocytes: translocation of hormone-sensitive lipase to the lipid storage droplet.Egan JJ et al
254754672014A novel LIPE nonsense mutation found using exome sequencing in siblings with late-onset familial partial lipodystrophy.Farhan SM et al
118507542002The hormone-sensitive lipase gene and body composition: the HERITAGE Family Study.Garenc C et al
128406602003Letting lipids go: hormone-sensitive lipase.Haemmerle G et al
236880342013Risk interaction of obesity, insulin resistance and hormone-sensitive lipase promoter polymorphisms (LIPE-60 C > G) in the development of fatty liver.Hsiao PJ et al
125180342003Expression of human hormone-sensitive lipase in white adipose tissue of transgenic mice increases lipase activity but does not enhance in vitro lipolysis.Lucas S et al
118464022002Characterization of a novel testicular form of human hormone-sensitive lipase.Mairal A et al
86920221996Detection of an amino acid polymorphism in hormone-sensitive lipase in Japanese subjects.Shimada F et al
88124771996Molecular cloning, genomic organization, and expression of a testicular isoform of hormone-sensitive lipase.Holst LS et al
117312262001Variation in the promoter of the human hormone sensitive lipase gene shows gender specific effects on insulin and lipid levels: results from the Ely study.Talmud PJ et al
79422811994The multifunctional role of hormone-sensitive lipase in lipid metabolism.Yeaman SJ et al
278628962017Homozygous LIPE mutation in siblings with multiple symmetric lipomatosis, partial lipodystrophy, and myopathy.Zolotov S et al

Other Information

Locus ID:

NCBI: 3991
MIM: 151750
HGNC: 6621
Ensembl: ENSG00000079435

Variants:

dbSNP: 3991
ClinVar: 3991
TCGA: ENSG00000079435
COSMIC: LIPE

RNA/Proteins

Gene IDTranscript IDUniprot
ENSG00000079435ENST00000244289Q05469
ENSG00000079435ENST00000597001M0QXM5
ENSG00000079435ENST00000597620M0QY29
ENSG00000079435ENST00000599211M0R2G1
ENSG00000079435ENST00000599783M0QYP8
ENSG00000079435ENST00000599918M0R201
ENSG00000079435ENST00000601189M0QXB1

Expression (GTEx)

0
50
100
150
200
250
300
350

Pathways

PathwaySourceExternal ID
Insulin signaling pathwayKEGGko04910
Insulin signaling pathwayKEGGhsa04910
AMPK signaling pathwayKEGGhsa04152
AMPK signaling pathwayKEGGko04152
cAMP signaling pathwayKEGGhsa04024
cAMP signaling pathwayKEGGko04024
Regulation of lipolysis in adipocytesKEGGhsa04923
MetabolismREACTOMER-HSA-1430728
Metabolism of lipids and lipoproteinsREACTOMER-HSA-556833
Lipid digestion, mobilization, and transportREACTOMER-HSA-73923
Hormone-sensitive lipase (HSL)-mediated triacylglycerol hydrolysisREACTOMER-HSA-163560
Aldosterone synthesis and secretionKEGGhsa04925
Aldosterone synthesis and secretionKEGGko04925
Apelin signaling pathwayKEGGhsa04371

Protein levels (Protein atlas)

Not detected
Low
Medium
High

References

Pubmed IDYearTitleCitations
170747552006Adipose triglyceride lipase and hormone-sensitive lipase are the major enzymes in adipose tissue triacylglycerol catabolism.191
216808142011Adipose triglyceride lipase contributes to cancer-associated cachexia.151
199131212009Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip.85
194335862009Contribution of adipose triglyceride lipase and hormone-sensitive lipase to lipolysis in hMADS adipocytes.68
173560532007Adipose triglyceride lipase and hormone-sensitive lipase protein expression is decreased in the obese insulin-resistant state.67
129703652003Involvement of a cGMP-dependent pathway in the natriuretic peptide-mediated hormone-sensitive lipase phosphorylation in human adipocytes.56
214987832011Altered skeletal muscle lipase expression and activity contribute to insulin resistance in humans.48
248489812014Null mutation in hormone-sensitive lipase gene and risk of type 2 diabetes.46
212417842011The resurgence of Hormone-Sensitive Lipase (HSL) in mammalian lipolysis.44
162438392005Perilipin targets a novel pool of lipid droplets for lipolytic attack by hormone-sensitive lipase.39

Citation

Seher Gök

LIPE (lipase E, hormone sensitive type)

Atlas Genet Cytogenet Oncol Haematol. 2018-02-01

Online version: http://atlasgeneticsoncology.org/gene/43466/lipe