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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

Gene LinkOut

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