SEN54/YPL083C Summary Help

Standard Name SEN54 1
Systematic Name YPL083C
Feature Type ORF, Verified
Description Subunit of the tRNA splicing endonuclease; tRNA splicing endonuclease is composed of Sen2p, Sen15p, Sen34p, and Sen54p (1 and see Summary Paragraph)
Name Description Splicing ENdonuclease 1
Gene Product Alias tRNA splicing endonuclease subunit 1
Chromosomal Location
ChrXVI:398105 to 396702 | ORF Map | GBrowse
Note: this feature is encoded on the Crick strand.
Gene Ontology Annotations All SEN54 GO evidence and references
  View Computational GO annotations for SEN54
Molecular Function
Manually curated
Biological Process
Manually curated
Cellular Component
Manually curated
Regulators 1 genes
Classical genetics
Large-scale survey
reduction of function
16 total interaction(s) for 14 unique genes/features.
Physical Interactions
  • Affinity Capture-MS: 3
  • Co-fractionation: 1
  • PCA: 1
  • Two-hybrid: 1

Genetic Interactions
  • Negative Genetic: 7
  • Positive Genetic: 1
  • Synthetic Growth Defect: 1
  • Synthetic Lethality: 1

Expression Summary
Length (a.a.) 467
Molecular Weight (Da) 54,648
Isoelectric Point (pI) 9.95
Phosphorylation PhosphoGRID | PhosphoPep Database
sequence information
ChrXVI:398105 to 396702 | ORF Map | GBrowse
Note: this feature is encoded on the Crick strand.
Last Update Coordinates: 2011-02-03 | Sequence: 1996-07-31
Subfeature details
Most Recent Updates
Coordinates Sequence
CDS 1..1404 398105..396702 2011-02-03 1996-07-31
Retrieve sequences
Analyze Sequence
S288C only
S288C vs. other species
S288C vs. other strains
External Links All Associated Seq | Entrez Gene | Entrez RefSeq Protein | MIPS | Search all NCBI (Entrez) | UniProtKB
Primary SGDIDS000006004

In tRNA splicing, the intron is removed from the tRNA transcript by the tRNA splicing endonuclease; the resulting half-molecules are joined by the tRNA ligase encoded by TRL1 and the splice junction 2'-phosphate is removed by the tRNA 2'-phosphotransferase encoded by TPT1 (reviewed in reference 2). The yeast tRNA splicing endonuclease consists of four subunits, Sen2p, Sen15p, Sen34p, and Sen54p, all of which are essential for viability (1) and which are largely conserved across eukaryotes and archaea (2). Sen34p and Sen2p show sequence similarity to each other and to the catalytic subunits in other organisms (1, 2). A sen34 mutation specifically blocks 3'-splice site cleavage (3), while a sen2 mutation specifically blocks 5'-splice site cleavage (3). Thus it is thought that the endonuclease complex contains two active sites, each responsible for one of the two cleavages (1, 2). The endonuclease has been assumed to be nuclear, however experimental evidence shows that in S. cerevisiae, tRNA splicing occurs in the cytoplasm, with the splicing endonuclease located on the outer surface of the mitochondrial membrane (4, 5), presumably via a hydrophobic segment of Sen2p (1). In contrast, in human cells, the endonuclease has been shown to be localized to the nucleus (6).

Last updated: 2008-09-03 Contact SGD

References cited on this page View Complete Literature Guide for SEN54
1) Trotta CR, et al.  (1997) The yeast tRNA splicing endonuclease: a tetrameric enzyme with two active site subunits homologous to the archaeal tRNA endonucleases. Cell 89(6):849-58
2) Calvin K and Li H  (2008) RNA-splicing endonuclease structure and function. Cell Mol Life Sci 65(7-8):1176-85
3) Ho CK, et al.  (1990) Accumulation of pre-tRNA splicing '2/3' intermediates in a Saccharomyces cerevisiae mutant. EMBO J 9(4):1245-52
4) Yoshihisa T, et al.  (2003) Possibility of cytoplasmic pre-tRNA splicing: the yeast tRNA splicing endonuclease mainly localizes on the mitochondria. Mol Biol Cell 14(8):3266-79
5) Yoshihisa T, et al.  (2007) Cytoplasmic splicing of tRNA in Saccharomyces cerevisiae. Genes Cells 12(3):285-97
6) Paushkin SV, et al.  (2004) Identification of a human endonuclease complex reveals a link between tRNA splicing and pre-mRNA 3' end formation. Cell 117(3):311-21