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Protein

tRNA-splicing endonuclease subunit SEN54

Gene

SEN54

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Non-catalytic subunit of the tRNA-splicing endonuclease complex, a complex responsible for identification and cleavage of the splice sites in pre-tRNA. It cleaves pre-tRNA at the 5' and 3' splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2',3' cyclic phosphate and 5'-OH termini. There are no conserved sequences at the splice sites, but the intron is invariably located at the same site in the gene, placing the splice sites an invariant distance from the constant structural features of the tRNA body. May be required to embody the molecular ruler of the complex.

GO - Biological processi

  • RNA phosphodiester bond hydrolysis Source: GOC
  • RNA phosphodiester bond hydrolysis, endonucleolytic Source: GOC
  • tRNA-type intron splice site recognition and cleavage Source: SGD
Complete GO annotation...

Keywords - Biological processi

tRNA processing

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16151.
YEAST:G3O-33989-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA-splicing endonuclease subunit SEN54
Alternative name(s):
Splicing endonuclease of 54 kDa
tRNA-intron endonuclease SEN54
Gene namesi
Name:SEN54
Ordered Locus Names:YPL083C
ORF Names:LPF3C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XVI

Organism-specific databases

EuPathDBiFungiDB:YPL083C.
SGDiS000006004. SEN54.

Subcellular locationi

GO - Cellular componenti

  • endomembrane system Source: UniProtKB-SubCell
  • mitochondrial outer membrane Source: SGD
  • tRNA-intron endonuclease complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Mitochondrion, Mitochondrion outer membrane, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 467467tRNA-splicing endonuclease subunit SEN54PRO_0000194034Add
BLAST

Proteomic databases

MaxQBiQ02825.
PRIDEiQ02825.

Interactioni

Subunit structurei

tRNA splicing endonuclease is a heterotetramer composed of SEN2, SEN15, SEN34 and SEN54. Interacts directly with SEN2.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
SEN2P166584EBI-16829,EBI-16953

Protein-protein interaction databases

BioGridi36098. 15 interactions.
DIPiDIP-4452N.
IntActiQ02825. 5 interactions.
MINTiMINT-549039.

Structurei

3D structure databases

ProteinModelPortaliQ02825.
SMRiQ02825. Positions 115-194.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi19 – 279Poly-Glu
Compositional biasi353 – 3564Poly-Asp

Sequence similaritiesi

Belongs to the SEN54 family.Curated

Phylogenomic databases

HOGENOMiHOG000141804.
InParanoidiQ02825.
KOiK15326.
OMAiRIHRGDA.
OrthoDBiEOG7PS1QF.

Family and domain databases

InterProiIPR024337. tRNA_splic_suSen54.
IPR024336. tRNA_splic_suSen54_N.
[Graphical view]
PANTHERiPTHR21027. PTHR21027. 2 hits.
PfamiPF12928. tRNA_int_end_N2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q02825-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQFAGKKTDQ VTTSNPGFEE EEEEEEELQQ DWSQLASLVS KNAALSLPKR
60 70 80 90 100
GEKDYEPDGT NLQDLLLYNA SKAMFDTISD SIRGTTVKSE VRGYYVPHKH
110 120 130 140 150
QAVLLKPKGS FMQTMGRADS TGELWLDFHE FVYLAERGTI LPYYRLEAGS
160 170 180 190 200
NKSSKHETEI LLSMEDLYSL FSSQQEMDQY FVFAHLKRLG FILKPSNQEA
210 220 230 240 250
AVKTSFFPLK KQRSNLQAIT WRLLSLFKIQ ELSLFSGFFY SKWNFFFRKY
260 270 280 290 300
TTSPQLYQGL NRLVRSVAVP KNKKELLDAQ SDREFQKVKD IPLTFKVWKP
310 320 330 340 350
HSNFKKRDPG LPDFQVFVYN KNDDLQHFPT YKELRSMFSS LDYKFEFLSE
360 370 380 390 400
IEDDDDWETN SYVEDIPRKE YIHKRSAKSQ TEKSESSMKA SFQKKTAQSS
410 420 430 440 450
TKKKRKAYPP HIQQNRRLKT GYRSFIIAIM DNGLISFVKM SEADFGSESV
460
WYTPNTQKKV DQRWKKH
Length:467
Mass (Da):54,649
Last modified:November 1, 1996 - v1
Checksum:i363A703856DE724E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U41849 Genomic DNA. Translation: AAB68256.1.
BK006949 Genomic DNA. Translation: DAA11350.1.
PIRiS61105.
RefSeqiNP_015242.1. NM_001183897.1.

Genome annotation databases

EnsemblFungiiYPL083C; YPL083C; YPL083C.
GeneIDi856022.
KEGGisce:YPL083C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U41849 Genomic DNA. Translation: AAB68256.1.
BK006949 Genomic DNA. Translation: DAA11350.1.
PIRiS61105.
RefSeqiNP_015242.1. NM_001183897.1.

3D structure databases

ProteinModelPortaliQ02825.
SMRiQ02825. Positions 115-194.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36098. 15 interactions.
DIPiDIP-4452N.
IntActiQ02825. 5 interactions.
MINTiMINT-549039.

Proteomic databases

MaxQBiQ02825.
PRIDEiQ02825.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYPL083C; YPL083C; YPL083C.
GeneIDi856022.
KEGGisce:YPL083C.

Organism-specific databases

EuPathDBiFungiDB:YPL083C.
SGDiS000006004. SEN54.

Phylogenomic databases

HOGENOMiHOG000141804.
InParanoidiQ02825.
KOiK15326.
OMAiRIHRGDA.
OrthoDBiEOG7PS1QF.

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16151.
YEAST:G3O-33989-MONOMER.

Miscellaneous databases

PROiQ02825.

Family and domain databases

InterProiIPR024337. tRNA_splic_suSen54.
IPR024336. tRNA_splic_suSen54_N.
[Graphical view]
PANTHERiPTHR21027. PTHR21027. 2 hits.
PfamiPF12928. tRNA_int_end_N2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI."
    Bussey H., Storms R.K., Ahmed A., Albermann K., Allen E., Ansorge W., Araujo R., Aparicio A., Barrell B.G., Badcock K., Benes V., Botstein D., Bowman S., Brueckner M., Carpenter J., Cherry J.M., Chung E., Churcher C.M.
    , Coster F., Davis K., Davis R.W., Dietrich F.S., Delius H., DiPaolo T., Dubois E., Duesterhoeft A., Duncan M., Floeth M., Fortin N., Friesen J.D., Fritz C., Goffeau A., Hall J., Hebling U., Heumann K., Hilbert H., Hillier L.W., Hunicke-Smith S., Hyman R.W., Johnston M., Kalman S., Kleine K., Komp C., Kurdi O., Lashkari D., Lew H., Lin A., Lin D., Louis E.J., Marathe R., Messenguy F., Mewes H.-W., Mirtipati S., Moestl D., Mueller-Auer S., Namath A., Nentwich U., Oefner P., Pearson D., Petel F.X., Pohl T.M., Purnelle B., Rajandream M.A., Rechmann S., Rieger M., Riles L., Roberts D., Schaefer M., Scharfe M., Scherens B., Schramm S., Schroeder M., Sdicu A.-M., Tettelin H., Urrestarazu L.A., Ushinsky S., Vierendeels F., Vissers S., Voss H., Walsh S.V., Wambutt R., Wang Y., Wedler E., Wedler H., Winnett E., Zhong W.-W., Zollner A., Vo D.H., Hani J.
    Nature 387:103-105(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. "The yeast tRNA splicing endonuclease: a tetrameric enzyme with two active site subunits homologous to the archaeal tRNA endonucleases."
    Trotta C.R., Miao F., Arn E.A., Stevens S.W., Ho C.K., Rauhut R., Abelson J.N.
    Cell 89:849-858(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION, PROTEIN SEQUENCE OF 322-332, SUBUNIT.
  4. "Possibility of cytoplasmic pre-tRNA splicing: the yeast tRNA splicing endonuclease mainly localizes on the mitochondria."
    Yoshihisa T., Yunoki-Esaki K., Ohshima C., Tanaka N., Endo T.
    Mol. Biol. Cell 14:3266-3279(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  5. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiSEN54_YEAST
AccessioniPrimary (citable) accession number: Q02825
Secondary accession number(s): D6W3T4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: November 1, 1996
Last modified: June 8, 2016
This is version 126 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

The tRNA splicing endonuclease complex is present with 100 molecules/cell.1 Publication
Present with 531 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome XVI
    Yeast (Saccharomyces cerevisiae) chromosome XVI: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.