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    LCBK1 long-chain base (LCB) kinase 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 832411, updated on 18-Sep-2024

    Summary

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    Official Symbol
    LCBK1
    Official Full Name
    long-chain base (LCB) kinase 1
    Primary source
    TAIR:AT5G23450
    Locus tag
    AT5G23450
    See related
    Araport:AT5G23450
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    ATLCBK1; K19M13.8; K19M13_8; long-chain base (LCB) kinase 1; SPHINGOSINE KINASE
    Summary
    Encodes a sphingosine kinase that specifically phosphorylates D-erythro-dihydrosphingosine (DHS), but not N-acetyl-DHS or D-threo-DHS. It also also phosphorylates D-erythro-sphingosine, trans-4, trans-8-sphingadienine and phytosphingosine.
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    Genomic context

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    See LCBK1 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    12
    Sequence:
    Chromosome: 5; NC_003076.8 (7904293..7909623, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Transducin/WD40 repeat-like superfamily protein Neighboring gene ferredoxin/thioredoxin reductase subunit A (variable subunit) 1 Neighboring gene uncharacterized protein Neighboring gene Haloacid dehalogenase-like hydrolase (HAD) superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. MEDEA-interacting protein LONG-CHAIN BASE KINASE 1 promotes pattern-triggered immunity in Arabidopsis thaliana. Gupta P, et al. Plant Mol Biol, 2020 May. PMID 32100164
    2. Phosphorylation of sphingoid long-chain bases in Arabidopsis: functional characterization and expression of the first sphingoid long-chain base Kinase gene in plants. Imai H, et al. Plant Cell Physiol, 2005 Feb. PMID 15695468
    3. The calmodulin-binding protein kinase 3 is part of heat-shock signal transduction in Arabidopsis thaliana. Liu HT, et al. Plant J, 2008 Sep. PMID 18466301
    4. Border control--a membrane-linked interactome of Arabidopsis. Jones AM, et al. Science, 2014 May 16. PMID 24833385
    5. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LCBK1 is an interactor of MEA that positively regulates pattern-triggered immunity induced stomatal closure in Arabidopsis
      Title: MEDEA-interacting protein LONG-CHAIN BASE KINASE 1 promotes pattern-triggered immunity in Arabidopsis thaliana.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_001036852.4
    NM_001343804.1
    NM_122252.4
    NM_180734.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables D-erythro-sphingosine kinase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within sphingolipid biosynthetic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in sphingolipid biosynthetic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in mitochondrion ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    long-chain base (LCB) kinase 1
    NP_001031929.4
    • long-chain base (LCB) kinase 1 (LCBK1); FUNCTIONS IN: diacylglycerol kinase activity, D-erythro-sphingosine kinase activity; INVOLVED IN: activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway, sphingolipid biosynthetic process; LOCATED IN: plasma membrane; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Diacylglycerol kinase, catalytic domain (InterPro:IPR001206); BEST Arabidopsis thaliana protein match is: sphingosine kinase 1 (TAIR:AT4G21540.1); Has 1850 Blast hits to 1642 proteins in 445 species: Archae - 2; Bacteria - 669; Metazoa - 552; Fungi - 144; Plants - 247; Viruses - 0; Other Eukaryotes - 236 (source: NCBI BLink).
    NP_568432.1
    • long-chain base (LCB) kinase 1 (LCBK1); FUNCTIONS IN: diacylglycerol kinase activity, D-erythro-sphingosine kinase activity; INVOLVED IN: activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway, sphingolipid biosynthetic process; LOCATED IN: plasma membrane; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Diacylglycerol kinase, catalytic domain (InterPro:IPR001206); BEST Arabidopsis thaliana protein match is: sphingosine kinase 1 (TAIR:AT4G21540.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
    NP_851065.1
    • long-chain base (LCB) kinase 1 (LCBK1); FUNCTIONS IN: diacylglycerol kinase activity, D-erythro-sphingosine kinase activity; INVOLVED IN: activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway, sphingolipid biosynthetic process; LOCATED IN: plasma membrane; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Diacylglycerol kinase, catalytic domain (InterPro:IPR001206); BEST Arabidopsis thaliana protein match is: sphingosine kinase 1 (TAIR:AT4G21540.1); Has 4352 Blast hits to 4113 proteins in 1166 species: Archae - 8; Bacteria - 2944; Metazoa - 550; Fungi - 174; Plants - 282; Viruses - 0; Other Eukaryotes - 394 (source: NCBI BLink).

    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_003076.8 Reference assembly

      Range
      7904293..7909623 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001343803.1 → NP_001331260.1  long-chain base (LCB) kinase 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BDB5, A0A654G3H4

    2. NM_180734.3 → NP_851065.1  long-chain base (LCB) kinase 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_851065.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      B9DHC8, Q9FHL3, Q9LRB0
      UniProtKB/TrEMBL
      A0A178UBT3, A0A5S9Y744, A0A654G3H4
      Conserved Domains (2) summary
      COG1597
      Location:249 → 542
      LCB5; Diacylglycerol kinase family enzyme [Lipid transport and metabolism, General function prediction only]
      pfam00781
      Location:249 → 380
      DAGK_cat; Diacylglycerol kinase catalytic domain

    3. NM_122252.4 → NP_568432.1  long-chain base (LCB) kinase 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_568432.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      B9DHC8, Q9FHL3, Q9LRB0
      UniProtKB/TrEMBL
      A0A178UBT3, A0A5S9Y744, A0A654G3H4
      Conserved Domains (2) summary
      COG1597
      Location:249 → 542
      LCB5; Diacylglycerol kinase family enzyme [Lipid transport and metabolism, General function prediction only]
      pfam00781
      Location:249 → 380
      DAGK_cat; Diacylglycerol kinase catalytic domain

    4. NM_001343804.1 → NP_001331261.1  long-chain base (LCB) kinase 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      B9DHC8, Q9FHL3, Q9LRB0
      UniProtKB/TrEMBL
      A0A178UBT3, A0A5S9Y744, A0A654G3H4
      Conserved Domains (2) summary
      COG1597
      Location:249 → 542
      LCB5; Diacylglycerol kinase family enzyme [Lipid transport and metabolism, General function prediction only]
      pfam00781
      Location:249 → 380
      DAGK_cat; Diacylglycerol kinase catalytic domain

    5. NM_001036852.4 → NP_001031929.4  long-chain base (LCB) kinase 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001031929.4

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A654G3H4, B3H501
      Conserved Domains (1) summary
      pfam00781
      Location:249 → 395
      DAGK_cat; Diacylglycerol kinase catalytic domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LRB0.1

    Gene LinkOut

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