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SEN1 DNA/RNA helicase SEN1 [ Saccharomyces cerevisiae S288C ]

Gene ID: 851150, updated on 2-Nov-2024

Summary

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Official Symbol
SEN1
Official Full Name
DNA/RNA helicase SEN1
Primary source
SGD:S000004422
Locus tag
YLR430W
See related
AllianceGenome:SGD:S000004422; FungiDB:YLR430W; VEuPathDB:YLR430W
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Saccharomyces cerevisiae S288C (strain: S288C)
Lineage
Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as
CIK3; NRD2
Summary
Enables 5'-3' DNA helicase activity; 5'-3' DNA/RNA helicase activity; and protein domain specific binding activity. Involved in several processes, including DNA metabolic process; RNA metabolic process; and cell redox homeostasis. Located in cytoplasm and replication fork. Part of Nrd1 complex. Is active in nucleus. Used to study amyotrophic lateral sclerosis type 4 and spinocerebellar ataxia with axonal neuropathy 2. Human ortholog(s) of this gene implicated in amyotrophic lateral sclerosis type 4 and spinocerebellar ataxia with axonal neuropathy 2. Orthologous to human SETX (senataxin). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See SEN1 in Genome Data Viewer
Location:
chromosome: XII
Exon count:
1
Sequence:
Chromosome: XII; NC_001144.5 (993434..1000129)

Chromosome XII - NC_001144.5Genomic Context describing neighboring genes Neighboring gene Mag2p Neighboring gene Crn1p Neighboring gene Atg23p Neighboring gene IMP dehydrogenase IMD3

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. SEN1, a positive effector of tRNA-splicing endonuclease in Saccharomyces cerevisiae. DeMarini DJ, et al. Mol Cell Biol, 1992 May. PMID 1569945, Free PMC Article
  2. Single-molecule characterization of extrinsic transcription termination by Sen1 helicase. Wang S, et al. Nat Commun, 2019 Apr 4. PMID 30948716, Free PMC Article
  3. Inactivation of the yeast Sen1 protein affects the localization of nucleolar proteins. Ursic D, et al. Mol Gen Genet, 1995 Dec 20. PMID 8544822
  4. Sen1 has unique structural features grafted on the architecture of the Upf1-like helicase family. Leonaitė B, et al. EMBO J, 2017 Jun 1. PMID 28408439, Free PMC Article
  5. The yeast SEN1 gene is required for the processing of diverse RNA classes. Ursic D, et al. Nucleic Acids Res, 1997 Dec 1. PMID 9365256, Free PMC Article

See all (142) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Single-molecule characterization of Sen1 translocation properties provides insights into eukaryotic factor-dependent transcription termination.
    Title: Single-molecule characterization of Sen1 translocation properties provides insights into eukaryotic factor-dependent transcription termination.
  2. Sen1 and Rrm3 ensure permissive topological conditions for replication termination.
    Title: Sen1 and Rrm3 ensure permissive topological conditions for replication termination.
  3. Sen1 is a key regulator of transcription-driven conflicts.
    Title: Sen1 is a key regulator of transcription-driven conflicts.
  4. Modulated termination of non-coding transcription partakes in the regulation of gene expression.
    Title: Modulated termination of non-coding transcription partakes in the regulation of gene expression.
  5. Genetic and pharmacological evidence for kinetic competition between alternative poly(A) sites in yeast.
    Title: Genetic and pharmacological evidence for kinetic competition between alternative poly(A) sites in yeast.
  6. Sen1 Is Recruited to Replication Forks via Ctf4 and Mrc1 and Promotes Genome Stability.
    Title: Sen1 Is Recruited to Replication Forks via Ctf4 and Mrc1 and Promotes Genome Stability.
  7. Termination of non-coding transcription in yeast relies on both an RNA Pol II CTD interaction domain and a CTD-mimicking region in Sen1.
    Title: Termination of non-coding transcription in yeast relies on both an RNA Pol II CTD interaction domain and a CTD-mimicking region in Sen1.
  8. Three sequence motifs in Sen1 that mediate direct interactions with the RNA polymerase II CTD interaction domain (CID) of Nrd1 have been identified.
    Title: Identification of Three Sequence Motifs in the Transcription Termination Factor Sen1 that Mediate Direct Interactions with Nrd1.
  9. A harmless head-on replication-transcription clash resolution requires the fine-tuning of origin firing and coordination among Sen1, Exo1, Mre11 and Mrc1-Ctf4 complexes.
    Title: Dormant origins and fork protection mechanisms rescue sister forks arrested by transcription.
  10. RNA polymerase II CTD tyrosine 1 is required for efficient termination by the Nrd1-Nab3-Sen1 pathway by slowing down transcription and suppressing termination defects.
    Title: RNA Polymerase II CTD Tyrosine 1 Is Required for Efficient Termination by the Nrd1-Nab3-Sen1 Pathway.
Submit: New GeneRIF Correction See all GeneRIFs (29)

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 5'-3' DNA helicase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables 5'-3' DNA/RNA helicase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
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 
enables protein binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein domain specific binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein domain specific binding IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables transcription termination site sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in DNA damage response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in DNA duplex unwinding IEA
Inferred from Electronic Annotation
more info
  
involved_in DNA-templated DNA replication maintenance of fidelity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in DNA-templated transcription termination IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in cell redox homeostasis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in mRNA 3'-end processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in rRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in rRNA processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in snRNA processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in sno(s)RNA 3'-end processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in tRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in tRNA processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in termination of RNA polymerase II transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in termination of RNA polymerase II transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in termination of RNA polymerase III transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in transcription-coupled nucleotide-excision repair IGI
Inferred from Genetic Interaction
more info
 PubMed 
Component Evidence Code Pubs
part_of Nrd1 complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in nuclear body IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in replication fork IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
DNA/RNA helicase SEN1
NP_013534.3
  • ATP-dependent 5' to 3' RNA/DNA and DNA helicase; subunit of the exosome-associated Nrd1p complex that mediates 3' end formation of snRNAs, snoRNAs, CUTs and some mRNAs; helicase-independent role in transcription-coupled repair; coordinates replication with transcription, associating with moving forks and preventing errors that occur when forks encounter transcribed regions; homolog of Senataxin, implicated in Ataxia-Oculomotor Apraxia 2 and a dominant form of juvenile ALS

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
    993434..1000129
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001182318.3 → NP_013534.3  TPA: DNA/RNA helicase SEN1 [Saccharomyces cerevisiae S288C]

    See identical proteins and their annotated locations for NP_013534.3

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    D6VZ65, E9P9Z4, Q00416, Q06448
    UniProtKB/TrEMBL
    B3RHT9, N1P7F6
    Conserved Domains (2) summary
    COG1112
    Location:1006 → 1858
    DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
    pfam12726
    Location:106 → 859
    SEN1_N; SEN1 N terminal
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q00416.2

Gene LinkOut

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