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    CLP1 cleavage polyadenylation factor subunit CLP1 [ Saccharomyces cerevisiae S288C ]

    Gene ID: 854424, updated on 9-Dec-2024

    Summary

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    Official Symbol
    CLP1
    Official Full Name
    cleavage polyadenylation factor subunit CLP1
    Primary source
    SGD:S000005776
    Locus tag
    YOR250C
    See related
    AllianceGenome:SGD:S000005776; FungiDB:YOR250C; VEuPathDB:YOR250C
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Saccharomyces cerevisiae S288C (strain: S288C)
    Lineage
    Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
    Summary
    Contributes to RNA binding activity. Involved in mRNA 3'-end processing. Part of mRNA cleavage factor complex. Used to study pontocerebellar hypoplasia. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 10. Orthologous to human CLP1 (cleavage factor polyribonucleotide kinase subunit 1). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See CLP1 in Genome Data Viewer
    Location:
    chromosome: XV
    Exon count:
    1
    Sequence:
    Chromosome: XV; NC_001147.6 (800970..802307, complement)

    Chromosome XV - NC_001147.6Genomic Context describing neighboring genes Neighboring gene Srl1p Neighboring gene anaphase promoting complex subunit 5 Neighboring gene thiosulfate sulfurtransferase Neighboring gene Tma16p

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001147.6

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. A role for CF1A 3' end processing complex in promoter-associated transcription. Al Husini N, et al. PLoS Genet, 2013. PMID 23966880, Free PMC Article
    2. Genomewide Analysis of Clp1 Function in Transcription in Budding Yeast. Al-Husini N, et al. Sci Rep, 2017 Jul 31. PMID 28761171, Free PMC Article
    3. Structural basis for ATP loss by Clp1p in a G135R mutant protein. Dupin AF, et al. Biochimie, 2014 Jun. PMID 24508575
    4. Human RNA 5'-kinase (hClp1) can function as a tRNA splicing enzyme in vivo. Ramirez A, et al. RNA, 2008 Sep. PMID 18648070, Free PMC Article
    5. The major yeast poly(A)-binding protein is associated with cleavage factor IA and functions in premessenger RNA 3'-end formation. Minvielle-Sebastia L, et al. Proc Natl Acad Sci U S A, 1997 Jul 22. PMID 9223284, Free PMC Article

    See all (55) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. X-ray crystallographic evidence of an extended binding interface of Pcf11p with Clp1p which is likely to be S. cerevisiae specific.
      Title: Structural basis for ATP loss by Clp1p in a G135R mutant protein.
    2. results support a structural role for the Clp1 P-loop motif. ATP binding by Clp1 likely contributes to CF IA formation and cross-factor interactions during the dynamic process of 3' end formation
      Title: The P-loop domain of yeast Clp1 mediates interactions between CF IA and CPF factors in pre-mRNA 3' end formation.
    3. The results define Clp1 as a bridge between CF IA and Cleavage-Polyadenylation Factor and indicate that the Clp1-Pcf11 interaction is modulated by amino acids in the conserved ATP-binding site of Clp1.
      Title: The interaction of Pcf11 and Clp1 is needed for mRNA 3'-end formation and is modulated by amino acids in the ATP-binding site.
    4. CF IA is reconstituted from Rna14, Rna15, Pcf11, and Clp1 proteins in 2:2:1:1 stoichiometry.
      Title: Reconstitution of CF IA from overexpressed subunits reveals stoichiometry and provides insights into molecular topology.
    5. Molecular model of a ternary complex of Clp1-ATP and the Clp1-binding region of Pcf11.
      Title: Structure of a nucleotide-bound Clp1-Pcf11 polyadenylation factor.
    Submit: New GeneRIF Correction

    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
    		  
    contributes_to RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables polynucleotide 5'-hydroxyl-kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables polynucleotide 5'-hydroxyl-kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA 3'-end processing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in mRNA 3'-end processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tRNA splicing, via endonucleolytic cleavage and ligation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of mRNA cleavage factor complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of mRNA cleavage factor complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    cleavage polyadenylation factor subunit CLP1
    NP_014893.1
    • Component of the cleavage and polyadenylation factor I (CF I); CF 1, composed of the CF 1A complex (Rna14p, Rna15p, Clp1p, Pcf11p) and Hrp1, is involved in cleavage and polyadenylation of mRNA 3' ends; involved in both the endonucleolyitc cleavage and polyadenylation steps of mRNA 3'-end maturation and in gene looping which affects reinitiation of transcription; mutations in human ortholog cause cerebellar neurodegeneration

    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_001147.6 Reference assembly

      Range
      800970..802307 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001183669.1 → NP_014893.1  TPA: cleavage polyadenylation factor subunit CLP1 [Saccharomyces cerevisiae S288C]

      See identical proteins and their annotated locations for NP_014893.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A6ZP88, D6W2V1, Q08685
      UniProtKB/TrEMBL
      B3LJR8, C7GWD9, N1NWV2
      Conserved Domains (1) summary
      COG5623
      Location:23 → 445
      CLP1; Predicted GTPase subunit of the pre-mRNA cleavage complex [Translation, ribosomal structure and biogenesis]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q08685.1

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