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    SPT1 serine palmitoyltransferase 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 824039, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SPT1
    Official Full Name
    serine palmitoyltransferase 1
    Primary source
    TAIR:AT3G48780
    Locus tag
    AT3G48780
    See related
    Araport:AT3G48780
    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
    ATSPT1; serine palmitoyltransferase 1; SERINE PALMITOYLTRANSFERASE 1
    Summary
    Encodes one of the two LCB2 subunits (LCB2a and LCB2b) of serine palmitoyltransferase, an enzyme involved in sphingolipid biosynthesis. LCB2a and LCB2b are functional redundant. Double mutants are gametophytic lethal.
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    Genomic context

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    See SPT1 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    12
    Sequence:
    Chromosome: 3; NC_003074.8 (18089020..18093252)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene ATP/DNA binding protein Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene Pyridoxal phosphate (PLP)-dependent transferases superfamily protein Neighboring gene Sterile alpha motif (SAM) domain-containing protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Loss-of-function mutations and inducible RNAi suppression of Arabidopsis LCB2 genes reveal the critical role of sphingolipids in gametophytic and sporophytic cell viability. Dietrich CR, et al. Plant J, 2008 Apr. PMID 18208516
    2. ORM Expression Alters Sphingolipid Homeostasis and Differentially Affects Ceramide Synthase Activity. Kimberlin AN, et al. Plant Physiol, 2016 Oct. PMID 27506241, Free PMC Article
    3. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Findings indicate that AtORM1 and AtORM2 mediation of serine palmitoyltransferase (SPT) activity differentially regulates functionally distinct ceramide synthase activities as part of a broader sphingolipid homeostatic regulatory network.
      Title: ORM Expression Alters Sphingolipid Homeostasis and Differentially Affects Ceramide Synthase Activity.
    2. The roles of the LCB2a and LCB2b subunits in sphingolipid biosyntesis in A. thaliana were studied.
      Title: Loss-of-function mutations and inducible RNAi suppression of Arabidopsis LCB2 genes reveal the critical role of sphingolipids in gametophytic and sporophytic cell viability.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    NM_114737.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables pyridoxal phosphate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables serine C-palmitoyltransferase activity IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within photomorphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pollen development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within sphingolipid biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    serine palmitoyltransferase 1
    NP_190447.1
    • serine palmitoyltransferase 1 (SPT1); FUNCTIONS IN: serine C-palmitoyltransferase activity; INVOLVED IN: photomorphogenesis, sphingolipid biosynthetic process, pollen development; LOCATED IN: endomembrane system; CONTAINS InterPro DOMAIN/s: Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Aminotransferase, class I/classII (InterPro:IPR004839), Aminotransferase, class-II, pyridoxal-phosphate binding site (InterPro:IPR001917), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421); BEST Arabidopsis thaliana protein match is: long chain base2 (TAIR:AT5G23670.2); Has 10415 Blast hits to 10387 proteins in 2165 species: Archae - 77; Bacteria - 7001; Metazoa - 736; Fungi - 585; Plants - 234; Viruses - 9; Other Eukaryotes - 1773 (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_003074.8 Reference assembly

      Range
      18089020..18093252
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001339379.1 → NP_001325849.1  serine palmitoyltransferase 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q0WMY9, Q9M304
      UniProtKB/TrEMBL
      A0A178VGT5, A0A5S9XJ53, A0A654FFZ0
      Conserved Domains (1) summary
      PLN02483
      Location:1 → 489
      PLN02483; serine palmitoyltransferase

    2. NM_114737.5 → NP_190447.1  serine palmitoyltransferase 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_190447.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q0WMY9, Q9M304
      UniProtKB/TrEMBL
      A0A178VGT5, A0A5S9XJ53, A0A654FFZ0
      Conserved Domains (1) summary
      PLN02483
      Location:1 → 489
      PLN02483; serine palmitoyltransferase
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9M304.1

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