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    clpf-1 Pre-mRNA cleavage complex subunit Clp1 C-terminal domain-containing protein;Protein clpf-1 [ Caenorhabditis elegans ]

    Gene ID: 175442, updated on 9-Dec-2024

    Summary

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    Official Symbol
    clpf-1
    Official Full Name
    Pre-mRNA cleavage complex subunit Clp1 C-terminal domain-containing protein;Protein clpf-1
    Primary source
    WormBase:WBGene00010304
    Locus tag
    CELE_F59A2.4
    See related
    AllianceGenome:WB:WBGene00010304
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Caenorhabditis elegans (strain: Bristol N2)
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
    Summary
    Enables ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity. Predicted to be involved in tRNA splicing, via endonucleolytic cleavage and ligation. Predicted to be active in nucleus. 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 clpf-1 in Genome Data Viewer
    Location:
    chromosome: III
    Exon count:
    8
    Sequence:
    Chromosome: III; NC_003281.10 (3397743..3400644)

    Chromosome III - NC_003281.10Genomic Context describing neighboring genes Neighboring gene ELMO domain-containing protein;ELMO domain-containing protein C56G7.3 Neighboring gene Myosin regulatory light chain Neighboring gene Conserved regulator of innate immunity protein 3 Neighboring gene Nuclear Pore complex Protein Neighboring gene ACT domain-containing protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003281.10

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. RNA specificity and regulation of catalysis in the eukaryotic polynucleotide kinase Clp1. Dikfidan A, et al. Mol Cell, 2014 Jun 19. PMID 24813946
    2. Genes involved in pre-mRNA 3'-end formation and transcription termination revealed by a lin-15 operon Muv suppressor screen. Cui M, et al. Proc Natl Acad Sci U S A, 2008 Oct 28. PMID 18946043, Free PMC Article
    3. Functional identification of microRNA-centered complexes in C. elegans. Hebbar S, et al. Sci Rep, 2022 May 3. PMID 35504914, Free PMC Article
    4. The Regulatory Landscape of Lineage Differentiation in a Metazoan Embryo. Du Z, et al. Dev Cell, 2015 Sep 14. PMID 26321128, Free PMC Article
    5. A global analysis of genetic interactions in Caenorhabditis elegans. Byrne AB, et al. J Biol, 2007. PMID 17897480, Free PMC Article

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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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    Markers

    Homology

    Gene Ontology Provided by WormBase

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity 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 RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    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
    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
    Pre-mRNA cleavage complex subunit Clp1 C-terminal domain-containing protein;Protein clpf-1
    NP_001040858.1
    • Confirmed by transcript evidence
    NP_001040859.1
    • Confirmed by transcript evidence

    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_003281.10 Reference assembly

      Range
      3397743..3400644
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001047393.5 → NP_001040858.1  Protein clpf-1 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001040858.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P52874
      Conserved Domains (4) summary
      COG5623
      Location:6 → 423
      CLP1; Predicted GTPase subunit of the pre-mRNA cleavage complex [Translation, ribosomal structure and biogenesis]
      pfam06807
      Location:313 → 423
      Clp1; Pre-mRNA cleavage complex II protein Clp1
      pfam16573
      Location:9 → 100
      CLP1_N; N-terminal beta-sandwich domain of polyadenylation factor
      pfam16575
      Location:121 → 306
      CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop

    2. NM_001047394.4 → NP_001040859.1  Pre-mRNA cleavage complex subunit Clp1 C-terminal domain-containing protein [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001040859.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q2EEP3
      Conserved Domains (1) summary
      pfam06807
      Location:1 → 80
      Clp1; Pre-mRNA cleavage complex II protein Clp1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P52874.2

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