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SPHK1 sphingosine kinase 1 [ Homo sapiens (human) ]

Gene ID: 8877, updated on 2-Mar-2021

Summary

Official Symbol
SPHK1provided by HGNC
Official Full Name
sphingosine kinase 1provided by HGNC
Primary source
HGNC:HGNC:11240
See related
Ensembl:ENSG00000176170 MIM:603730
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SPHK
Summary
The protein encoded by this gene catalyzes the phosphorylation of sphingosine to form sphingosine-1-phosphate (S1P), a lipid mediator with both intra- and extracellular functions. Intracellularly, S1P regulates proliferation and survival, and extracellularly, it is a ligand for cell surface G protein-coupled receptors. This protein, and its product S1P, play a key role in TNF-alpha signaling and the NF-kappa-B activation pathway important in inflammatory, antiapoptotic, and immune processes. Phosphorylation of this protein alters its catalytic activity and promotes its translocation to the plasma membrane. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Sep 2017]
Expression
Ubiquitous expression in gall bladder (RPKM 4.9), esophagus (RPKM 4.2) and 25 other tissues See more
Orthologs
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Genomic context

See SPHK1 in Genome Data Viewer
Location:
17q25.1
Exon count:
7
Annotation release Status Assembly Chr Location
109.20210226 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (76383204..76387855)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (74379285..74383936)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene phosphoribosyl pyrophosphate synthetase associated protein 1 Neighboring gene RNA, U6 small nuclear 24, pseudogene Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene 43 Neighboring gene ubiquitin conjugating enzyme E2 O Neighboring gene ribosomal protein L7 pseudogene 49 Neighboring gene aralkylamine N-acetyltransferase

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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 upregulates the expression of sphingosine kinase 1 (SPHK1) in human B cells PubMed

Go to the HIV-1, Human Interaction Database

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
ATP binding IDA
Inferred from Direct Assay
more info
PubMed 
D-erythro-sphingosine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
D-erythro-sphingosine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
D-erythro-sphingosine kinase activity TAS
Traceable Author Statement
more info
 
DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
NAD+ kinase activity IEA
Inferred from Electronic Annotation
more info
 
acetyltransferase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
calmodulin binding IDA
Inferred from Direct Assay
more info
PubMed 
lipid binding IDA
Inferred from Direct Assay
more info
PubMed 
lipid kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
magnesium ion binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein phosphatase 2A binding IPI
Inferred from Physical Interaction
more info
PubMed 
sphinganine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
sphingosine-1-phosphate receptor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
Process Evidence Code Pubs
DNA biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
blood vessel development IEA
Inferred from Electronic Annotation
more info
 
brain development IEA
Inferred from Electronic Annotation
more info
 
calcium-mediated signaling IDA
Inferred from Direct Assay
more info
PubMed 
cellular response to growth factor stimulus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular response to hydrogen peroxide IEA
Inferred from Electronic Annotation
more info
 
cellular response to vascular endothelial growth factor stimulus IDA
Inferred from Direct Assay
more info
PubMed 
inflammatory response IEA
Inferred from Electronic Annotation
more info
 
intracellular signal transduction TAS
Traceable Author Statement
more info
PubMed 
lipid phosphorylation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of apoptotic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of apoptotic process IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of apoptotic process TAS
Traceable Author Statement
more info
PubMed 
negative regulation of ceramide biosynthetic process IDA
Inferred from Direct Assay
more info
PubMed 
phosphorylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of NF-kappaB transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of NF-kappaB transcription factor activity ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of NIK/NF-kappaB signaling IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of angiogenesis IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cell growth IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cell migration IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of fibroblast proliferation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of interleukin-17 production ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of mitotic cell cycle IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of mitotic nuclear division IEA
Inferred from Electronic Annotation
more info
 
positive regulation of p38MAPK cascade IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of peptidyl-threonine phosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of protein ubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of smooth muscle contraction IDA
Inferred from Direct Assay
more info
PubMed 
protein acetylation ISS
Inferred from Sequence or Structural Similarity
more info
 
protein folding TAS
Traceable Author Statement
more info
 
regulation of endocytosis IDA
Inferred from Direct Assay
more info
PubMed 
regulation of endosomal vesicle fusion ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of interleukin-1 beta production IEA
Inferred from Electronic Annotation
more info
 
regulation of microglial cell activation ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of neuroinflammatory response ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of phagocytosis ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of tumor necrosis factor-mediated signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
response to tumor necrosis factor IDA
Inferred from Direct Assay
more info
PubMed 
sphingoid catabolic process NAS
Non-traceable Author Statement
more info
PubMed 
sphingolipid biosynthetic process TAS
Traceable Author Statement
more info
 
sphingolipid metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
sphingosine biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
sphingosine biosynthetic process IGI
Inferred from Genetic Interaction
more info
PubMed 
sphingosine biosynthetic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
sphingosine metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
sphingosine-1-phosphate receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
clathrin-coated pit IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
PubMed 
early endosome membrane IDA
Inferred from Direct Assay
more info
PubMed 
endocytic vesicle ISS
Inferred from Sequence or Structural Similarity
more info
 
intracellular membrane-bounded organelle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
presynapse ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
sphingosine kinase 1
Names
SK 1
SPK 1
acetyltransferase SPHK1
NP_001136073.1
NP_001136074.1
NP_001342068.1
NP_068807.2
NP_892010.2

NCBI Reference Sequences (RefSeq)

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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_001142601.2NP_001136073.1  sphingosine kinase 1 isoform 3

    See identical proteins and their annotated locations for NP_001136073.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an alternate in-frame segment in the 5' coding region and uses a downstream start codon, compared to variant 2. Isoform 3 has a shorter N-terminus, compared to isoform 2. Variants 3, 4 and 5 encode the same isoform (3).
    Source sequence(s)
    AK022402, BC030553, DC384776
    Consensus CDS
    CCDS45785.1
    UniProtKB/Swiss-Prot
    Q9NYA1
    UniProtKB/TrEMBL
    Q53ZR5
    Related
    ENSP00000465726.1, ENST00000592299.5
    Conserved Domains (1) summary
    PLN02958
    Location:11345
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase
  2. NM_001142602.2NP_001136074.1  sphingosine kinase 1 isoform 3

    See identical proteins and their annotated locations for NP_001136074.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains an alternate in-frame segment in the 5' coding region and uses a downstream start codon, compared to variant 2. Isoform 3 has a shorter N-terminus, compared to isoform 2. Variants 3, 4 and 5 encode the same isoform (3).
    Source sequence(s)
    BC030553, BP304783, DC384776
    Consensus CDS
    CCDS45785.1
    UniProtKB/Swiss-Prot
    Q9NYA1
    UniProtKB/TrEMBL
    Q53ZR5
    Related
    ENSP00000376285.2, ENST00000392496.3
    Conserved Domains (1) summary
    PLN02958
    Location:11345
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase
  3. NM_001355139.2NP_001342068.1  sphingosine kinase 1 isoform 3

    Status: REVIEWED

    Source sequence(s)
    BC030553, DA482243, DC384776
    Consensus CDS
    CCDS45785.1
    Conserved Domains (1) summary
    PLN02958
    Location:11345
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase
  4. NM_021972.4NP_068807.2  sphingosine kinase 1 isoform 1

    See identical proteins and their annotated locations for NP_068807.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) has multiple differences in the coding region, compared to variant 2. The resulting protein (isoform 1) has a shorter N-terminus and contains an additional in-frame portion of the 5' coding region, compared to isoform 2.
    Source sequence(s)
    AK022402, BC009419, BC030553, DC384776
    Consensus CDS
    CCDS59297.1
    UniProtKB/Swiss-Prot
    Q9NYA1
    Related
    ENSP00000468547.1, ENST00000590959.5
    Conserved Domains (1) summary
    cl27661
    Location:25359
    LCB5; Diacylglycerol kinase family enzyme [Lipid transport and metabolism, General function prediction only]
  5. NM_182965.3NP_892010.2  sphingosine kinase 1 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) represents the longest transcript and encodes the longest isoform (2).
    Source sequence(s)
    AK022402, BC030553, DC384776
    Consensus CDS
    CCDS11744.1
    UniProtKB/Swiss-Prot
    Q9NYA1
    Related
    ENSP00000313681.3, ENST00000323374.8
    Conserved Domains (2) summary
    PLN02958
    Location:97431
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase
    pfam00781
    Location:102207
    DAGK_cat; Diacylglycerol kinase catalytic domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210226

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p13 Primary Assembly

    Range
    76383204..76387855
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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