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LCB3 sphinganine kinase LCB3 [ Saccharomyces cerevisiae S288C ]

Gene ID: 853307, updated on 2-Nov-2024

Summary

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Official Symbol
LCB3
Official Full Name
sphinganine kinase LCB3
Primary source
SGD:S000003670
Locus tag
YJL134W
See related
AllianceGenome:SGD:S000003670; FungiDB:YJL134W; VEuPathDB:YJL134W
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Saccharomyces cerevisiae S288C (strain: S288C)
Lineage
Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as
LBP1; YSR2
Summary
Enables sphingosine-1-phosphate phosphatase activity. Involved in calcium-mediated signaling. Located in endoplasmic reticulum. Orthologous to several human genes including SGPP1 (sphingosine-1-phosphate phosphatase 1). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See LCB3 in Genome Data Viewer
Location:
chromosome: X
Exon count:
1
Sequence:
Chromosome: X; NC_001142.9 (158188..159417)

Chromosome X - NC_001142.9Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene ribosomal 40S subunit protein S21B Neighboring gene Dpi8p Neighboring gene Fe(2+) transporter

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_001142.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Transmembrane topology of sphingoid long-chain base-1-phosphate phosphatase, Lcb3p. Kihara A, et al. Genes Cells, 2003 Jun. PMID 12786943
  2. Identification of a Saccharomyces gene, LCB3, necessary for incorporation of exogenous long chain bases into sphingolipids. Qie L, et al. J Biol Chem, 1997 Jun 27. PMID 9195906
  3. Saccharomyces cerevisiae as a platform for assessing sphingolipid lipid kinase inhibitors. Kharel Y, et al. PLoS One, 2018. PMID 29672528, Free PMC Article
  4. Identification and characterization of Saccharomyces cerevisiae dihydrosphingosine-1-phosphate phosphatase. Mao C, et al. J Biol Chem, 1997 Nov 7. PMID 9353337
  5. Analysis of phosphorylated sphingolipid long-chain bases reveals potential roles in heat stress and growth control in Saccharomyces. Skrzypek MS, et al. J Bacteriol, 1999 Feb. PMID 9973338, Free PMC Article

See all (52) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by SGD

Function Evidence Code Pubs
enables dihydrosphingosine-1-phosphate phosphatase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables sphingosine-1-phosphate phosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables sphingosine-1-phosphate phosphatase activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in calcium-mediated signaling IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in lipid metabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in phospholipid dephosphorylation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in sphingolipid biosynthetic process TAS
Traceable Author Statement
more info
 PubMed 
involved_in sphingolipid metabolic process IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in endoplasmic reticulum HDA PubMed 
located_in endoplasmic reticulum IDA
Inferred from Direct Assay
more info
 PubMed 
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
sphinganine kinase LCB3
NP_012401.1
  • Long-chain base-1-phosphate phosphatase; specific for dihydrosphingosine-1-phosphate, regulates ceramide and long-chain base phosphates levels, involved in incorporation of exogenous long chain bases in sphingolipids; LCB3 has a paralog, YSR3, that arose from the whole genome duplication

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

  1. NC_001142.9 Reference assembly

    Range
    158188..159417
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001181567.1 → NP_012401.1  TPA: sphinganine kinase LCB3 [Saccharomyces cerevisiae S288C]

    See identical proteins and their annotated locations for NP_012401.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    D6VW50, P47013
    UniProtKB/TrEMBL
    B3LPY3, B5VL43, C7GPZ4, D3UF55, G2WGN6
    Conserved Domains (1) summary
    cd03388
    Location:77 → 230
    PAP2_SPPase1; PAP2_like proteins, sphingosine-1-phosphatase subfamily. Sphingosine-1-phosphatase is an intracellular enzyme located in the endoplasmic reticulum, which regulates the level of sphingosine-1-phosphate (S1P), a bioactive lipid. S1P acts as a second ...
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P47013.1

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