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    SCD6 Scd6p [ Saccharomyces cerevisiae S288C ]

    Gene ID: 856247, updated on 4-Aug-2024

    Summary

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    Gene symbol
    SCD6
    Gene description
    Scd6p
    Primary source
    FungiDB:YPR129W
    Locus tag
    YPR129W
    See related
    SGD:S000006333; AllianceGenome:SGD:S000006333; 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 human LSM14B (LSM family member 14B) and LSM14A (LSM14A mRNA processing body assembly factor). [provided by Alliance of Genome Resources, Apr 2022]
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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. RGG-motif self-association regulates eIF4G-binding translation repressor protein Scd6. Poornima G, et al. RNA Biol, 2019 Sep. PMID 31157589, Free PMC Article
    4. 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
    5. The mRNA decapping complex is buffered by nuclear localization. Tishinov K, et al. J Cell Sci, 2021 Sep 15. PMID 34435633

    See all (56) 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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