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SCD6 Scd6p [ Saccharomyces cerevisiae S288C ]

Gene ID: 856247, updated on 9-Dec-2024

Summary

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Official Symbol
SCD6
Official Full Name
Scd6p
Primary source
SGD:S000006333
Locus tag
YPR129W
See related
AllianceGenome:SGD:S000006333; FungiDB:YPR129W; VEuPathDB:YPR129W
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
LSM13
Summary
Enables eukaryotic initiation factor 4G binding activity and mRNA binding activity. Involved in P-body assembly; negative regulation of translational initiation; and stress granule assembly. Located in P-body and cytoplasmic stress granule. Orthologous to several human genes including LSM14B (LSM family member 14B). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See SCD6 in Genome Data Viewer
Location:
chromosome: XVI
Exon count:
1
Sequence:
Chromosome: XVI; NC_001148.4 (792687..793736)

Chromosome XVI - NC_001148.4Genomic Context describing neighboring genes Neighboring gene pyridoxine 4-dehydrogenase Neighboring gene Ant1p Neighboring gene peptide alpha-N-acetyltransferase complex B subunit NAT3 Neighboring gene ribosomal 40S subunit protein S23B

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_001148.4

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. DEKTV and YVG motifs in the Lsm domain are important for the activity of Scd6, a conserved translation repressor protein. Parbin S, et al. Biochim Biophys Acta Gene Regul Mech, 2020 Feb. PMID 31926930
  2. Acidic stress induces the formation of P-bodies, but not stress granules, with mild attenuation of bulk translation in Saccharomyces cerevisiae. Iwaki A, et al. Biochem J, 2012 Sep 1. PMID 22686455
  3. Suppressors of clathrin deficiency: overexpression of ubiquitin rescues lethal strains of clathrin-deficient Saccharomyces cerevisiae. Nelson KK, et al. Mol Cell Biol, 1993 Jan. PMID 8380227, Free PMC Article
  4. Tdh3 and Rom2 are functional modulators of a conserved condensate-resident RNA-binding protein, Scd6, in Saccharomyces cerevisiae. Togra C, et al. Genetics, 2024 Oct 7. PMID 39093296
  5. RGG-motif self-association regulates eIF4G-binding translation repressor protein Scd6. Poornima G, et al. RNA Biol, 2019 Sep. PMID 31157589, Free PMC Article

See all (66) citations in PubMed

GeneRIFs: Gene References Into Functions

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 RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables eukaryotic initiation factor 4G binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables mRNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in P-body assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in P-body assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of translational initiation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of translational initiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of translation IEA
Inferred from Electronic Annotation
more info
  
involved_in stress granule assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in stress granule assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in P-body IDA
Inferred from Direct Assay
more info
 PubMed 
located_in P-body IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm HDA PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasmic stress granule HDA PubMed 
located_in cytoplasmic stress granule IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasmic stress granule IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
Scd6p
NP_015454.1
  • Repressor of translation initiation; binds eIF4G through its RGG domain and inhibits recruitment of the preinitiation complex; also contains an Lsm domain; may have a role in RNA processing; overproduction suppresses null mutation in clathrin heavy chain gene CHC1; forms cytoplasmic foci upon DNA replication stress

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_001148.4 Reference assembly

    Range
    792687..793736
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001184226.1 → NP_015454.1  TPA: Scd6p [Saccharomyces cerevisiae S288C]

    See identical proteins and their annotated locations for NP_015454.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    D6W4C6, P45978
    UniProtKB/TrEMBL
    B3LK91, B5VTR7, C8ZJF1, N1P2E7
    Conserved Domains (2) summary
    cd01736
    Location:1 → 76
    LSm14_N; Like-Sm protein 14, N-terminal domain
    pfam09532
    Location:200 → 278
    FDF; FDF domain
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P45978.1

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