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    SKI2 SKI complex RNA helicase subunit SKI2 [ Saccharomyces cerevisiae S288C ]

    Gene ID: 851114, updated on 2-Nov-2024

    Summary

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    Official Symbol
    SKI2
    Official Full Name
    SKI complex RNA helicase subunit SKI2
    Primary source
    SGD:S000004390
    Locus tag
    YLR398C
    See related
    AllianceGenome:SGD:S000004390; FungiDB:YLR398C; VEuPathDB:YLR398C
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Saccharomyces cerevisiae S288C (strain: S288C)
    Lineage
    Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
    Summary
    Enables mRNA binding activity. Involved in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay and nuclear-transcribed mRNA catabolic process, non-stop decay. Located in cytoplasm. Part of Ski complex. Used to study trichohepatoenteric syndrome 2. Human ortholog(s) of this gene implicated in trichohepatoenteric syndrome 2. Orthologous to human SKIC2 (SKI2 subunit of superkiller complex). [provided by Alliance of Genome Resources, Nov 2024]
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    Genomic context

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    See SKI2 in Genome Data Viewer
    Location:
    chromosome: XII
    Exon count:
    1
    Sequence:
    Chromosome: XII; NC_001144.5 (915156..919019, complement)

    Chromosome XII - NC_001144.5Genomic Context describing neighboring genes Neighboring gene tethering complex ATP-binding subunit VPS33 Neighboring gene AAA family ATPase AFG2 Neighboring gene chromatin-binding protein BDF1 Neighboring gene tRNA dihydrouridine synthase DUS3

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001144.5

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Ribosome Collision Is Critical for Quality Control during No-Go Decay. Simms CL, et al. Mol Cell, 2017 Oct 19. PMID 28943311, Free PMC Article
    2. Evidence that the SKI antiviral system of Saccharomyces cerevisiae acts by blocking expression of viral mRNA. Widner WR, et al. Mol Cell Biol, 1993 Jul. PMID 8321235, Free PMC Article
    3. Secondary structures involving the poly(A) tail and other 3' sequences are major determinants of mRNA isoform stability in yeast. Moqtaderi Z, et al. Microb Cell, 2014 Apr. PMID 25279376, Free PMC Article
    4. RNA-controlled nucleocytoplasmic shuttling of mRNA decay factors regulates mRNA synthesis and a novel mRNA decay pathway. Chattopadhyay S, et al. Nat Commun, 2022 Nov 23. PMID 36418294, Free PMC Article
    5. The yeast Ski complex is a hetero-tetramer. Synowsky SA, et al. Protein Sci, 2008 Jan. PMID 18042677, Free PMC Article

    See all (128) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Ski2, Ski3, and Ski8 assemble in a tetramer with 1:1:2 stoichiometry; 370 kDa core complex shows that Ski3 forms an array of 33 tetratricopeptide repeat motifs organized in N-terminal and C-terminal arms. The C-terminal arm of Ski3 and the two Ski8 subunits position the helicase core of Ski2 centrally within the complex, enhancing RNA binding.
      Title: The yeast ski complex: crystal structure and RNA channeling to the exosome complex.
    2. the 2.4 A resolution crystal structure of the 113 kDa helicase region of Saccharomyces cerevisiae Ski2 was determined.
      Title: The crystal structure of S. cerevisiae Ski2, a DExH helicase associated with the cytoplasmic functions of the exosome.
    3. Inactivating the Ski complex by mutating conserved residues in the DEVH helicase motif of Ski2 did not abrogate its interaction with Ski7p, indicating that Ski2p function is not necessary for this interaction.
      Title: Domain interactions within the Ski2/3/8 complex and between the Ski complex and Ski7p.
    Submit: New GeneRIF Correction

    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 ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding HDA PubMed 
    Process Evidence Code Pubs
    involved_in RNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in defense response to virus IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process, non-stop decay IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of Ski complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of Ski complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of Ski complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    SKI complex RNA helicase subunit SKI2
    NP_013502.3
    • Ski complex component and putative RNA helicase; mediates 3'-5' RNA degradation by the cytoplasmic exosome; null mutants have superkiller phenotype of increased viral dsRNAs and are synthetic lethal with mutations in 5'-3' mRNA decay; mutations in the human ortholog, SKIV2L, causes Syndromic diarrhea/Trichohepatoenteric (SD/THE) syndrome

    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_001144.5 Reference assembly

      Range
      915156..919019 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001182286.3 → NP_013502.3  TPA: SKI complex RNA helicase subunit SKI2 [Saccharomyces cerevisiae S288C]

      See identical proteins and their annotated locations for NP_013502.3

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      D6VZ33, P35207, Q06047
      UniProtKB/TrEMBL
      B3RHR3, N1NYS9
      Conserved Domains (1) summary
      COG4581
      Location:137 → 1287
      Dob10; Superfamily II RNA helicase [Replication, recombination and repair]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P35207.2

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