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    RRP4 exosome non-catalytic core subunit RRP4 [ Saccharomyces cerevisiae S288C ]

    Gene ID: 856466, updated on 9-Dec-2024

    Summary

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    Official Symbol
    RRP4
    Official Full Name
    exosome non-catalytic core subunit RRP4
    Primary source
    SGD:S000001111
    Locus tag
    YHR069C
    See related
    AllianceGenome:SGD:S000001111; FungiDB:YHR069C; VEuPathDB:YHR069C
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Saccharomyces cerevisiae S288C (strain: S288C)
    Lineage
    Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
    Summary
    Predicted to enable RNA binding activity. Involved in RNA metabolic process. Part of cytoplasmic exosome (RNase complex) and nuclear exosome (RNase complex). Used to study multiple myeloma and short stature, hearing loss, retinitis pigmentosa, and distinctive facies. Human ortholog(s) of this gene implicated in short stature, hearing loss, retinitis pigmentosa, and distinctive facies. Orthologous to human EXOSC2 (exosome component 2). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See RRP4 in Genome Data Viewer
    Location:
    chromosome: VIII
    Exon count:
    1
    Sequence:
    Chromosome: VIII; NC_001140.6 (233579..234658, complement)

    Chromosome VIII - NC_001140.6Genomic Context describing neighboring genes Neighboring gene hydroxyacyl-thioester dehydratase HTD2 Neighboring gene deoxyhypusine synthase Neighboring gene tRNA (guanine) methyltransferase Neighboring gene Pcl5p

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001140.6

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. RNA channelling by the eukaryotic exosome. Malet H, et al. EMBO Rep, 2010 Dec. PMID 21072061, Free PMC Article
    2. Insight into the RNA Exosome Complex Through Modeling Pontocerebellar Hypoplasia Type 1b Disease Mutations in Yeast. Fasken MB, et al. Genetics, 2017 Jan. PMID 27777260, Free PMC Article
    3. Dob1p (Mtr4p) is a putative ATP-dependent RNA helicase required for the 3' end formation of 5.8S rRNA in Saccharomyces cerevisiae. de la Cruz J, et al. EMBO J, 1998 Feb 16. PMID 9463390, Free PMC Article
    4. Structural and biochemical characterization of the yeast exosome component Rrp40. Oddone A, et al. EMBO Rep, 2007 Jan. PMID 17159918, Free PMC Article
    5. Expanding the definition of the classical bipartite nuclear localization signal. Lange A, et al. Traffic, 2010 Mar. PMID 20028483, Free PMC Article

    See all (100) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A budding yeast model for human disease mutations in the EXOSC2 cap subunit of the RNA exosome complex.
      Title: A budding yeast model for human disease mutations in the EXOSC2 cap subunit of the RNA exosome complex.
    2. The three cap proteins (Csl4, Rrp4 and Rrp40) and the nuclease (Rrp44) are multidomain proteins with the expected conformational variability.
      Title: Structure determination of an 11-subunit exosome in complex with RNA by molecular replacement.
    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 RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in CUT catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in TRAMP-dependent tRNA surveillance pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in TRAMP-dependent tRNA surveillance pathway IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in U4 snRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in U4 snRNA 3'-end processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nuclear mRNA surveillance IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in nuclear polyadenylation-dependent rRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear polyadenylation-dependent rRNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in poly(A)-dependent snoRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in poly(A)-dependent snoRNA 3'-end processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in rRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of cytoplasmic exosome (RNase complex) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of cytoplasmic exosome (RNase complex) IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of exosome (RNase complex) IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of nuclear exosome (RNase complex) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of nuclear exosome (RNase complex) IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    exosome non-catalytic core subunit RRP4
    NP_011936.1
    • Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; predicted to contain RNA binding domains; mutations in the human ortholog, EXOSC2, cause SHRF (Short stature, Hearing loss, Retinitis pigmentosa and distinctive Facies) syndrome, an RNA exosomopathy

    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_001140.6 Reference assembly

      Range
      233579..234658 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001179199.1 → NP_011936.1  TPA: exosome non-catalytic core subunit RRP4 [Saccharomyces cerevisiae S288C]

      See identical proteins and their annotated locations for NP_011936.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      D3DL18, P38792
      UniProtKB/TrEMBL
      A6ZSX5, B3LSI7, B5VJZ7, C7GWT0, C8Z9K7, G2WFE1, N1P4J2
      Conserved Domains (1) summary
      COG1097
      Location:45 → 316
      Rrp4; Exosome complex RNA-binding protein Rrp4, contains S1 and KH domains [Translation, ribosomal structure and biogenesis]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P38792.1

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