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Protein

tRNA-splicing endonuclease subunit SEN2

Gene

SEN2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: -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. This subunit may anchor the endonuclease complex to the nuclear membrane. Probably carries the active site for 5'-splice site cleavage.1 Publication

Miscellaneous

The tRNA splicing endonuclease complex is present with 100 molecules/cell.1 Publication
Present with 319 molecules/cell in log phase SD medium.1 Publication

Caution

According to PubMed:9200603, it contains a transmembrane domain and may be responsible to anchor the complex into membranes, however, PubMed:12925762 showed that it is peripherically associated with membranes, and is probably not a transmembrane protein.Curated

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)DescriptionActionsGraphical viewLength
Active sitei289By similarity1
Active sitei297By similarity1
Active sitei328By similarity1

GO - Molecular functioni

  • lyase activity Source: UniProtKB-KW
  • nucleic acid binding Source: InterPro
  • tRNA-intron endonuclease activity Source: SGD

GO - Biological processi

  • mRNA cleavage involved in mRNA processing Source: SGD
  • tRNA-type intron splice site recognition and cleavage Source: SGD

Keywordsi

Molecular functionLyase
Biological processtRNA processing

Enzyme and pathway databases

BioCyciMetaCyc:G3O-32253-MONOMER
YEAST:G3O-32253-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA-splicing endonuclease subunit SEN2 (EC:4.6.1.16)
Alternative name(s):
Splicing endonuclease protein 2
tRNA-intron endonuclease SEN2
Gene namesi
Name:SEN2
Ordered Locus Names:YLR105C
ORF Names:L8004.12
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XII

Organism-specific databases

EuPathDBiFungiDB:YLR105C
SGDiS000004095 SEN2

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Membrane, Mitochondrion, Mitochondrion outer membrane, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001094621 – 377tRNA-splicing endonuclease subunit SEN2Add BLAST377

Proteomic databases

MaxQBiP16658
PaxDbiP16658
PRIDEiP16658

Interactioni

Subunit structurei

Heterotetramer composed of SEN2, SEN15, SEN34 and SEN54. Interacts directly with SEN54.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
SEN54Q028254EBI-16953,EBI-16829

Protein-protein interaction databases

BioGridi31378, 78 interactors
ComplexPortaliCPX-1832 tRNA-intron endonuclease complex
DIPiDIP-4821N
IntActiP16658, 7 interactors
MINTiP16658
STRINGi4932.YLR105C

Structurei

3D structure databases

ProteinModelPortaliP16658
SMRiP16658
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili119 – 174Sequence analysisAdd BLAST56

Sequence similaritiesi

Belongs to the tRNA-intron endonuclease family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

GeneTreeiENSGT00390000013266
HOGENOMiHOG000159660
InParanoidiP16658
KOiK15322
OMAiWLHCVNR
OrthoDBiEOG092C2YVE

Family and domain databases

Gene3Di3.40.1350.10, 1 hit
InterProiView protein in InterPro
IPR011856 tRNA_endonuc-like_dom_sf
IPR036167 tRNA_intron_Endo_cat-like_sf
IPR006677 tRNA_intron_Endonuc_cat-like
IPR006676 tRNA_splic
IPR016589 tRNA_splic_SEN2
PANTHERiPTHR21227 PTHR21227, 1 hit
PfamiView protein in Pfam
PF01974 tRNA_int_endo, 1 hit
PIRSFiPIRSF011789 tRNA_splic_SEN2, 1 hit
SUPFAMiSSF53032 SSF53032, 1 hit
TIGRFAMsiTIGR00324 endA, 1 hit

Sequencei

Sequence statusi: Complete.

P16658-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKGRVNQKR YKYPLPIHPV DDLPELILHN PLSWLYWAYR YYKSTNALND
60 70 80 90 100
KVHVDFIGDT TLHITVQDDK QMLYLWNNGF FGTGQFSRSE PTWKARTEAR
110 120 130 140 150
LGLNDTPLHN RGGTKSNTET EMTLEKVTQQ RRLQRLEFKK ERAKLERELL
160 170 180 190 200
ELRKKGGHID EENILLEKQR ESLRKFKLKQ TEDVGIVAQQ QDISESNLRD
210 220 230 240 250
EDNNLLDENG DLLPLESLEL MPVEAMFLTF ALPVLDISPA CLAGKLFQFD
260 270 280 290 300
AKYKDIHSFV RSYVIYHHYR SHGWCVRSGI KFGCDYLLYK RGPPFQHAEF
310 320 330 340 350
CVMGLDHDVS KDYTWYSSIA RVVGGAKKTF VLCYVERLIS EQEAIALWKS
360 370
NNFTKLFNSF QVGEVLYKRW VPGRNRD
Length:377
Mass (Da):44,109
Last modified:August 1, 1990 - v1
Checksum:iB5A9C7F865538F5C
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural varianti292G → E in the cold-sensitive allele sen2-3; defective in cleavage only at the 5'-splice site of tRNA precursors. 1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M32336 Genomic DNA Translation: AAB65811.1
Z73277 Genomic DNA Translation: CAA97670.1
U53876 Genomic DNA Translation: AAB67547.1
BK006945 Genomic DNA Translation: DAA09421.1
PIRiA38862
RefSeqiNP_013206.1, NM_001181992.1

Genome annotation databases

EnsemblFungiiYLR105C; YLR105C; YLR105C
GeneIDi850795
KEGGisce:YLR105C

Similar proteinsi

Entry informationi

Entry nameiSEN2_YEAST
AccessioniPrimary (citable) accession number: P16658
Secondary accession number(s): D6VYA5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 1, 1990
Last sequence update: August 1, 1990
Last modified: June 20, 2018
This is version 166 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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