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Protein

tRNA-splicing endonuclease subunit SEN34

Gene

SEN34

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

Constitutes one of the two 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. It probably carries the active site for 3'-splice site cleavage.

Catalytic activityi

PretRNA = a 3'-half-tRNA molecule with a 5'-OH end + a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei209 – 2091By similarity
Active sitei217 – 2171
Active sitei250 – 2501By similarity

GO - Molecular functioni

  1. lyase activity Source: UniProtKB-KW
  2. nucleic acid binding Source: InterPro
  3. tRNA-intron endonuclease activity Source: SGD

GO - Biological processi

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

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

tRNA processing

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16150.
YEAST:G3O-28870-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA-splicing endonuclease subunit SEN34 (EC:4.6.1.16)
Alternative name(s):
Splicing endonuclease of 34 kDa
tRNA-intron endonuclease SEN34
Gene namesi
Name:SEN34
Ordered Locus Names:YAR008W
ORF Names:FUN4
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome I

Organism-specific databases

CYGDiYAR008w.
SGDiS000000066. SEN34.

Subcellular locationi

Nucleus 1 Publication. Endomembrane system 1 Publication; Peripheral membrane protein 1 Publication. Mitochondrion outer membrane 1 Publication; Peripheral membrane protein 1 Publication; Cytoplasmic side 1 Publication
Note: The tRNA splicing endonuclease complex is predominantly associated with the outer membrane of mitochondria, suggesting that tRNA splicing mainly takes place on the mitochondrial surface.

GO - Cellular componenti

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

Keywords - Cellular componenti

Membrane, Mitochondrion, Mitochondrion outer membrane, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi217 – 2171H → A: Loss of function; induces a marked accumulation of 5' exon and intron-3' exon 2/3 molecule. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 275275tRNA-splicing endonuclease subunit SEN34PRO_0000109468Add
BLAST

Proteomic databases

MaxQBiP39707.
PaxDbiP39707.

Expressioni

Gene expression databases

GenevestigatoriP39707.

Interactioni

Subunit structurei

Heterotetramer composed of SEN2, SEN15, SEN34 and SEN54. Interacts directly with SEN15.1 Publication

Protein-protein interaction databases

BioGridi31794. 9 interactions.
DIPiDIP-3794N.
IntActiP39707. 3 interactions.
MINTiMINT-488800.
STRINGi4932.YAR008W.

Structurei

3D structure databases

ProteinModelPortaliP39707.
SMRiP39707. Positions 181-272.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the tRNA-intron endonuclease family.Curated

Phylogenomic databases

eggNOGiCOG1676.
GeneTreeiENSGT00390000003912.
HOGENOMiHOG000175584.
InParanoidiP39707.
KOiK15323.
OMAiEESSCHA.
OrthoDBiEOG7N905X.

Family and domain databases

Gene3Di3.40.1350.10. 1 hit.
InterProiIPR011856. tRNA_endonuc-like_dom.
IPR006677. tRNA_intron_Endonuc_cat-like.
IPR006676. tRNA_splic.
IPR016690. tRNA_splic_SEN34.
[Graphical view]
PfamiPF01974. tRNA_int_endo. 1 hit.
[Graphical view]
PIRSFiPIRSF017250. tRNA_splic_SEN34. 1 hit.
SUPFAMiSSF53032. SSF53032. 1 hit.
TIGRFAMsiTIGR00324. endA. 1 hit.

Sequencei

Sequence statusi: Complete.

P39707-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPPLVFDIDH IKLLRKWGIC GVLSGTLPTA AQQNVFLSVP LRLMLEDVLW
60 70 80 90 100
LHLNNLADVK LIRQEGDEIM EGITLERGAK LSKIVNDRLN KSFEYQRKFK
110 120 130 140 150
KDEHIAKLKK IGRINDKTTA EELQRLDKSS NNDQLIESSL FIDIANTSMI
160 170 180 190 200
LRDIRSDSDS LSRDDISDLL FKQYRQAGKM QTYFLYKALR DQGYVLSPGG
210 220 230 240 250
RFGGKFIAYP GDPLRFHSHL TIQDAIDYHN EPIDLISMIS GARLGTTVKK
260 270
LWVIGGVAEE TKETHFFSIE WAGFG
Length:275
Mass (Da):31,313
Last modified:February 1, 1995 - v1
Checksum:iCCEA2A30209AB03F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L22015 Genomic DNA. Translation: AAC04961.1.
BK006935 Genomic DNA. Translation: DAA06990.1.
PIRiS40903.
RefSeqiNP_009405.1. NM_001178212.1.

Genome annotation databases

EnsemblFungiiYAR008W; YAR008W; YAR008W.
GeneIDi851267.
KEGGisce:YAR008W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L22015 Genomic DNA. Translation: AAC04961.1.
BK006935 Genomic DNA. Translation: DAA06990.1.
PIRiS40903.
RefSeqiNP_009405.1. NM_001178212.1.

3D structure databases

ProteinModelPortaliP39707.
SMRiP39707. Positions 181-272.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31794. 9 interactions.
DIPiDIP-3794N.
IntActiP39707. 3 interactions.
MINTiMINT-488800.
STRINGi4932.YAR008W.

Proteomic databases

MaxQBiP39707.
PaxDbiP39707.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYAR008W; YAR008W; YAR008W.
GeneIDi851267.
KEGGisce:YAR008W.

Organism-specific databases

CYGDiYAR008w.
SGDiS000000066. SEN34.

Phylogenomic databases

eggNOGiCOG1676.
GeneTreeiENSGT00390000003912.
HOGENOMiHOG000175584.
InParanoidiP39707.
KOiK15323.
OMAiEESSCHA.
OrthoDBiEOG7N905X.

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16150.
YEAST:G3O-28870-MONOMER.

Miscellaneous databases

NextBioi968237.
PROiP39707.

Gene expression databases

GenevestigatoriP39707.

Family and domain databases

Gene3Di3.40.1350.10. 1 hit.
InterProiIPR011856. tRNA_endonuc-like_dom.
IPR006677. tRNA_intron_Endonuc_cat-like.
IPR006676. tRNA_splic.
IPR016690. tRNA_splic_SEN34.
[Graphical view]
PfamiPF01974. tRNA_int_endo. 1 hit.
[Graphical view]
PIRSFiPIRSF017250. tRNA_splic_SEN34. 1 hit.
SUPFAMiSSF53032. SSF53032. 1 hit.
TIGRFAMsiTIGR00324. endA. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequencing of chromosome I of Saccharomyces cerevisiae: analysis of the 42 kbp SPO7-CENI-CDC15 region."
    Clark M.W., Keng T., Storms R.K., Zhong W.-W., Fortin N., Zeng B., Delaney S., Ouellette B.F.F., Barton A.B., Kaback D.B., Bussey H.
    Yeast 10:535-541(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204511 / S288c / AB972.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. "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(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION, PROTEIN SEQUENCE OF 206-223, SUBUNIT, MUTAGENESIS OF HIS-217.
  5. "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(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.

Entry informationi

Entry nameiSEN34_YEAST
AccessioniPrimary (citable) accession number: P39707
Secondary accession number(s): D6VPM0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: January 7, 2015
This is version 125 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.

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 I
    Yeast (Saccharomyces cerevisiae) chromosome I: entries and gene names

External Data

Dasty 3

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 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.