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Protein

tRNA-splicing endonuclease subunit Sen2

Gene

Tsen2

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript 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. Probably carries the active site for 5'-splice site cleavage. The tRNA splicing endonuclease is also involved in mRNA processing via its association with pre-mRNA 3'-end processing factors, establishing a link between pre-tRNA splicing and pre-mRNA 3'-end formation, suggesting that the endonuclease subunits function in multiple RNA-processing events (By similarity).By similarity

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 sitei367 – 3671By similarity
Active sitei375 – 3751By similarity
Active sitei414 – 4141By similarity

GO - Molecular functioni

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

GO - Biological processi

  1. mRNA processing Source: UniProtKB-KW
  2. RNA phosphodiester bond hydrolysis Source: GOC
  3. RNA phosphodiester bond hydrolysis, endonucleolytic Source: GOC
  4. tRNA-type intron splice site recognition and cleavage Source: GO_Central
Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

mRNA processing, tRNA processing

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA-splicing endonuclease subunit Sen2 (EC:4.6.1.16)
Alternative name(s):
tRNA-intron endonuclease Sen2
Gene namesi
Name:Tsen2
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494: Chromosome 4

Organism-specific databases

RGDi1309946. Tsen2.

Subcellular locationi

Nucleus By similarity. Nucleusnucleolus By similarity
Note: May be transiently localized in the nucleolus.By similarity

GO - Cellular componenti

  1. centrosome Source: Ensembl
  2. cytoplasm Source: Ensembl
  3. nucleolus Source: UniProtKB-SubCell
  4. tRNA-intron endonuclease complex Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 463463tRNA-splicing endonuclease subunit Sen2PRO_0000109454Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei406 – 4061PhosphoserineBy similarity
Modified residuei409 – 4091PhosphoserineBy similarity
Modified residuei413 – 4131PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

PRIDEiQ5M954.

PTM databases

PhosphoSiteiQ5M954.

Expressioni

Gene expression databases

GenevestigatoriQ5M954.

Interactioni

Subunit structurei

tRNA splicing endonuclease is a heterotetramer composed of SEN2, SEN15, SEN34/LENG5 and SEN54. tRNA splicing endonuclease complex also contains proteins of the pre-mRNA 3'-end processing machinery such as CLP1, CPSF1, CPSF4 and CSTF2 (By similarity).By similarity

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000053267.

Structurei

3D structure databases

ProteinModelPortaliQ5M954.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the tRNA-intron endonuclease family.Curated

Phylogenomic databases

eggNOGiCOG1676.
GeneTreeiENSGT00390000013266.
HOGENOMiHOG000154285.
HOVERGENiHBG056610.
InParanoidiQ5M954.
KOiK15322.
OMAiKLVCRRN.
OrthoDBiEOG76X623.
PhylomeDBiQ5M954.

Family and domain databases

Gene3Di3.40.1350.10. 1 hit.
InterProiIPR011856. tRNA_endonuc-like_dom.
IPR006677. tRNA_intron_Endonuc_cat-like.
IPR006678. tRNA_intron_Endonuc_N.
IPR016589. tRNA_splic_SEN2.
[Graphical view]
PfamiPF01974. tRNA_int_endo. 1 hit.
PF02778. tRNA_int_endo_N. 1 hit.
[Graphical view]
PIRSFiPIRSF011789. tRNA_splic_SEN2. 1 hit.
SUPFAMiSSF53032. SSF53032. 1 hit.

Sequencei

Sequence statusi: Complete.

Q5M954-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAEAVFRAPK RKRRVYESYE SPLPIPFSQD QSPRKEFRIF QAEMISNNVV
60 70 80 90 100
VRGTEDMEQL YGKGYFGKGI LSRSRPNFTI SNPKLAARWK GVQTDMPIIT
110 120 130 140 150
SEKYQHRVEW ARDFMRRQGH DESTVQKILT DYTEPLEPPY RERKGESPQH
160 170 180 190 200
EPLSSKADSS LEGREGKDEL SVTTGGAGQS DDLQGLNTHS DCRQEGPGHA
210 220 230 240 250
TLTVASPSSL NGHAIEDPEA LSQIPCCSQE ALGQQDDLWP EASSQIAGES
260 270 280 290 300
RAAHEYVLIE EELCDVQEGA APHDELLKRK RLVCRRNPYR IFEYLQLSLE
310 320 330 340 350
EAFFLAYALG CLSIYYEKEP LTIVKLWQAF TAVQPTFRTT YMAYHYFRSK
360 370 380 390 400
GWVPKVGLKY GTDLLLYRKG PPFYHASYSV IIELVDDNFE GSLRRPFSWK
410 420 430 440 450
SLAALSRVSG NVSKELMLCY LIKPSTMTNE DMETPECMRR IQVQEVILSR
460
WVSSRERSDQ DEL
Length:463
Mass (Da):52,952
Last modified:February 1, 2005 - v1
Checksum:iF66CD72240AB7229
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC087631 mRNA. Translation: AAH87631.1.
RefSeqiNP_001014079.1. NM_001014057.1.
XP_008761462.1. XM_008763240.1.
XP_008761463.1. XM_008763241.1.
XP_008761464.1. XM_008763242.1.
UniGeneiRn.206216.

Genome annotation databases

EnsembliENSRNOT00000056429; ENSRNOP00000053267; ENSRNOG00000027158.
GeneIDi312649.
KEGGirno:312649.
UCSCiRGD:1309946. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC087631 mRNA. Translation: AAH87631.1.
RefSeqiNP_001014079.1. NM_001014057.1.
XP_008761462.1. XM_008763240.1.
XP_008761463.1. XM_008763241.1.
XP_008761464.1. XM_008763242.1.
UniGeneiRn.206216.

3D structure databases

ProteinModelPortaliQ5M954.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000053267.

PTM databases

PhosphoSiteiQ5M954.

Proteomic databases

PRIDEiQ5M954.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000056429; ENSRNOP00000053267; ENSRNOG00000027158.
GeneIDi312649.
KEGGirno:312649.
UCSCiRGD:1309946. rat.

Organism-specific databases

CTDi80746.
RGDi1309946. Tsen2.

Phylogenomic databases

eggNOGiCOG1676.
GeneTreeiENSGT00390000013266.
HOGENOMiHOG000154285.
HOVERGENiHBG056610.
InParanoidiQ5M954.
KOiK15322.
OMAiKLVCRRN.
OrthoDBiEOG76X623.
PhylomeDBiQ5M954.

Miscellaneous databases

NextBioi665062.
PROiQ5M954.

Gene expression databases

GenevestigatoriQ5M954.

Family and domain databases

Gene3Di3.40.1350.10. 1 hit.
InterProiIPR011856. tRNA_endonuc-like_dom.
IPR006677. tRNA_intron_Endonuc_cat-like.
IPR006678. tRNA_intron_Endonuc_N.
IPR016589. tRNA_splic_SEN2.
[Graphical view]
PfamiPF01974. tRNA_int_endo. 1 hit.
PF02778. tRNA_int_endo_N. 1 hit.
[Graphical view]
PIRSFiPIRSF011789. tRNA_splic_SEN2. 1 hit.
SUPFAMiSSF53032. SSF53032. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Brain.

Entry informationi

Entry nameiSEN2_RAT
AccessioniPrimary (citable) accession number: Q5M954
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 6, 2005
Last sequence update: February 1, 2005
Last modified: February 4, 2015
This is version 78 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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.