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    LCB3 sphinganine kinase LCB3 [ Saccharomyces cerevisiae S288C ]

    Gene ID: 853307, updated on 9-Dec-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, Dec 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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