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LPIN3 lipin 3 [ Homo sapiens (human) ]

Gene ID: 64900, updated on 1-Jun-2020

Summary

Official Symbol
LPIN3provided by HGNC
Official Full Name
lipin 3provided by HGNC
Primary source
HGNC:HGNC:14451
See related
Ensembl:ENSG00000132793 MIM:605520
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SMP2; LIPN3L; dJ620E11.2
Summary
The protein encoded by this gene is a member of the lipin family of proteins, and all family members share strong homology in their C-terminal region. This protein is thought to form hetero-oligomers with other lipin family members, while one family member, lipin 1, can also form homo-oligomers. This protein contains conserved motifs for phosphatidate phosphatase 1 (PAP1) activity as well as a domain that interacts with a transcriptional co-activator. Lipin complexes act in the cytoplasm to catalyze the dephosphorylation of phosphatidic acid to produce diacylglycerol, which is the precursor of both triglycerides and phospholipids. Lipin complexes are also thought to regulate gene expression as transcriptional co-activators in the nucleus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2014]
Expression
Ubiquitous expression in duodenum (RPKM 19.3), skin (RPKM 16.1) and 23 other tissues See more
Orthologs

Genomic context

See LPIN3 in Genome Data Viewer
Location:
20q12
Exon count:
23
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (41340779..41360583)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (39969495..39989222)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene zinc fingers and homeoboxes 3 Neighboring gene RNA, 7SL, cytoplasmic 615, pseudogene Neighboring gene acireductone dioxygenase 1 pseudogene 1 Neighboring gene zinc finger MYM-type containing 1 pseudogene Neighboring gene elastin microfibril interfacer 3 Neighboring gene chromodomain helicase DNA binding protein 6 Neighboring gene ribosomal protein L12 pseudogene 11

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
phosphatidate phosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcription coactivator activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
cellular lipid metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular response to insulin stimulus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
dephosphorylation IEA
Inferred from Electronic Annotation
more info
 
fatty acid catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
phosphatidylcholine biosynthetic process TAS
Traceable Author Statement
more info
 
phosphatidylethanolamine biosynthetic process TAS
Traceable Author Statement
more info
 
positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
triglyceride biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
phosphatidate phosphatase LPIN3
NP_001288789.1
NP_075047.1
XP_005260573.1
XP_006723926.1
XP_011527298.1
XP_011527299.1
XP_011527300.1
XP_011527301.1
XP_011527302.1
XP_011527303.1
XP_011527304.1
XP_011527305.1
XP_011527306.1
XP_011527307.1
XP_011527308.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001301860.2NP_001288789.1  phosphatidate phosphatase LPIN3 isoform 1

    See identical proteins and their annotated locations for NP_001288789.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the supported protein.
    Source sequence(s)
    AL031667, AL132654, BC140806, BX647082
    Consensus CDS
    CCDS33469.2
    UniProtKB/Swiss-Prot
    Q9BQK8
    Related
    ENSP00000487971.1, ENST00000632009.1
    Conserved Domains (4) summary
    pfam03546
    Location:100370
    Treacle; Treacher Collins syndrome protein Treacle
    pfam04571
    Location:1107
    Lipin_N; lipin, N-terminal conserved region
    pfam08235
    Location:593818
    LNS2; LNS2 (Lipin/Ned1/Smp2)
    pfam16876
    Location:439529
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain
  2. NM_022896.3NP_075047.1  phosphatidate phosphatase LPIN3 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL031667, AL132654
    Related
    ENSP00000362354.3, ENST00000373257.7
    Conserved Domains (4) summary
    pfam03546
    Location:93369
    Treacle; Treacher Collins syndrome protein Treacle
    pfam04571
    Location:1107
    Lipin_N; lipin, N-terminal conserved region
    pfam08235
    Location:592817
    LNS2; LNS2 (Lipin/Ned1/Smp2)
    pfam16876
    Location:438528
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain

RNA

  1. NR_126051.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) contains alternate splice sites at two internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD)
    Source sequence(s)
    AL031667, AL132654, BC140806, BC144598, BX647082

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p13 Primary Assembly

    Range
    41340779..41360583
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011528997.3XP_011527299.1  phosphatidate phosphatase LPIN3 isoform X1

    See identical proteins and their annotated locations for XP_011527299.1

    Conserved Domains (4) summary
    pfam15017
    Location:868907
    AF1Q; Drug resistance and apoptosis regulator
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
    pfam08235
    Location:593874
    LNS2; LNS2 (Lipin/Ned1/Smp2)
    pfam16876
    Location:439529
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain
  2. XM_011528999.3XP_011527301.1  phosphatidate phosphatase LPIN3 isoform X1

    See identical proteins and their annotated locations for XP_011527301.1

    Conserved Domains (4) summary
    pfam15017
    Location:868907
    AF1Q; Drug resistance and apoptosis regulator
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
    pfam08235
    Location:593874
    LNS2; LNS2 (Lipin/Ned1/Smp2)
    pfam16876
    Location:439529
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain
  3. XM_011528998.3XP_011527300.1  phosphatidate phosphatase LPIN3 isoform X1

    See identical proteins and their annotated locations for XP_011527300.1

    Conserved Domains (4) summary
    pfam15017
    Location:868907
    AF1Q; Drug resistance and apoptosis regulator
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
    pfam08235
    Location:593874
    LNS2; LNS2 (Lipin/Ned1/Smp2)
    pfam16876
    Location:439529
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain
  4. XM_011528996.2XP_011527298.1  phosphatidate phosphatase LPIN3 isoform X1

    See identical proteins and their annotated locations for XP_011527298.1

    Conserved Domains (4) summary
    pfam15017
    Location:868907
    AF1Q; Drug resistance and apoptosis regulator
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
    pfam08235
    Location:593874
    LNS2; LNS2 (Lipin/Ned1/Smp2)
    pfam16876
    Location:439529
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain
  5. XM_011529001.2XP_011527303.1  phosphatidate phosphatase LPIN3 isoform X3

    Conserved Domains (4) summary
    pfam15017
    Location:761800
    AF1Q; Drug resistance and apoptosis regulator
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
    pfam08235
    Location:593767
    LNS2; LNS2 (Lipin/Ned1/Smp2)
    pfam16876
    Location:439529
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain
  6. XM_011529000.2XP_011527302.1  phosphatidate phosphatase LPIN3 isoform X2

    Conserved Domains (4) summary
    pfam15017
    Location:867906
    AF1Q; Drug resistance and apoptosis regulator
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
    pfam08235
    Location:592873
    LNS2; LNS2 (Lipin/Ned1/Smp2)
    pfam16876
    Location:438528
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain
  7. XM_011529003.1XP_011527305.1  phosphatidate phosphatase LPIN3 isoform X5

    Conserved Domains (3) summary
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
    pfam16876
    Location:439529
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain
    cl21460
    Location:593680
    HAD_like; Haloacid Dehalogenase-like Hydrolases
  8. XM_011529004.1XP_011527306.1  phosphatidate phosphatase LPIN3 isoform X6

    Conserved Domains (3) summary
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
    pfam16876
    Location:439529
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain
    cl21460
    Location:593680
    HAD_like; Haloacid Dehalogenase-like Hydrolases
  9. XM_011529005.2XP_011527307.1  phosphatidate phosphatase LPIN3 isoform X7

    Conserved Domains (3) summary
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
    pfam16876
    Location:439529
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain
    cl21460
    Location:593683
    HAD_like; Haloacid Dehalogenase-like Hydrolases
  10. XM_005260516.2XP_005260573.1  phosphatidate phosphatase LPIN3 isoform X9

    Conserved Domains (1) summary
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
  11. XM_006723863.2XP_006723926.1  phosphatidate phosphatase LPIN3 isoform X8

    See identical proteins and their annotated locations for XP_006723926.1

    Conserved Domains (1) summary
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
  12. XM_011529006.2XP_011527308.1  phosphatidate phosphatase LPIN3 isoform X8

    See identical proteins and their annotated locations for XP_011527308.1

    Conserved Domains (1) summary
    pfam04571
    Location:1106
    Lipin_N; lipin, N-terminal conserved region
  13. XM_011529002.3XP_011527304.1  phosphatidate phosphatase LPIN3 isoform X4

    Conserved Domains (3) summary
    pfam15017
    Location:736775
    AF1Q; Drug resistance and apoptosis regulator
    pfam08235
    Location:461742
    LNS2; LNS2 (Lipin/Ned1/Smp2)
    pfam16876
    Location:307397
    Lipin_mid; Lipin/Ned1/Smp2 multi-domain protein middle domain

RNA

  1. XR_001754379.1 RNA Sequence

  2. XR_430311.1 RNA Sequence

  3. XR_936610.2 RNA Sequence

  4. XR_001754380.1 RNA Sequence

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