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Protein

tRNA-splicing endonuclease subunit Sen2-2

Gene

SEN2

Organism
Arabidopsis thaliana (Mouse-ear cress)
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 (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 sitei148 – 1481By similarity
Active sitei156 – 1561By similarity
Active sitei189 – 1891By similarity

GO - Molecular functioni

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

GO - Biological processi

  1. mRNA processing Source: UniProtKB-KW
  2. tRNA splicing, via endonucleolytic cleavage and ligation Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

mRNA processing, tRNA processing

Enzyme and pathway databases

BioCyciARA:AT5G60230-MONOMER.
ARA:GQT-2328-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA-splicing endonuclease subunit Sen2-2 (EC:4.6.1.16)
Alternative name(s):
tRNA-intron endonuclease Sen2-2
Short name:
AtSen2
Gene namesi
Name:SEN2
Ordered Locus Names:At5g60230
ORF Names:F15L12.18
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 5

Organism-specific databases

TAIRiAT5G60230.

Subcellular locationi

Nucleus By similarity

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 250250tRNA-splicing endonuclease subunit Sen2-2PRO_0000109457Add
BLAST

Proteomic databases

PRIDEiQ9LSS3.

Expressioni

Gene expression databases

GenevestigatoriQ9LSS3.

Interactioni

Subunit structurei

tRNA splicing endonuclease is a heterotetramer composed of SEN2, SEN15, SEN34/LENG5 and SEN54.By similarity

Structurei

3D structure databases

ProteinModelPortaliQ9LSS3.
SMRiQ9LSS3. Positions 67-209.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the tRNA-intron endonuclease family.Curated

Phylogenomic databases

eggNOGiNOG305469.
HOGENOMiHOG000030044.
InParanoidiQ9LSS3.
KOiK15322.
PhylomeDBiQ9LSS3.

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.
[Graphical view]
PfamiPF01974. tRNA_int_endo. 1 hit.
PF02778. tRNA_int_endo_N. 1 hit.
[Graphical view]
SUPFAMiSSF53032. SSF53032. 1 hit.

Sequencei

Sequence statusi: Complete.

This entry describes 1 isoform i produced by alternative splicing. Align

Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: Q9LSS3-1) [UniParc]FASTAAdd to Basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MAPRWKWKGA EAKALAEPIS KSVSELQLSL AETESSGTLS SCNVLLAVEP
60 70 80 90 100
EQAELLDRCC FGRLVLSAEK IKKWIQLSFE EAFFLHYNLK CIKISLQGRC
110 120 130 140 150
LENEVDTWLY MKSKRPNFPM FFKAYSHLRS KNWVLRSGLQ YGVDFVAYRH
160 170 180 190 200
HPSLVHSEYS VLVQSGDSDR LRVWSDIHCA VRLSGSVAKT LLTLYVNGNF
210 220 230 240 250
KGEDVNLLVC LENFTVEEQT ISRWSPELSR EDQSTNSKQH VPNVSNLNTL
Length:250
Mass (Da):28,519
Last modified:October 1, 2000 - v1
Checksum:iDFAEC30162214014
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB026632 Genomic DNA. Translation: BAA97504.1.
CP002688 Genomic DNA. Translation: AED97296.1.
BT004112 mRNA. Translation: AAO42135.1.
BT004920 mRNA. Translation: AAO50453.1.
RefSeqiNP_200831.1. NM_125416.3. [Q9LSS3-1]
UniGeneiAt.29175.

Genome annotation databases

EnsemblPlantsiAT5G60230.1; AT5G60230.1; AT5G60230. [Q9LSS3-1]
AT5G60230.2; AT5G60230.2; AT5G60230.
GeneIDi836145.
KEGGiath:AT5G60230.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB026632 Genomic DNA. Translation: BAA97504.1.
CP002688 Genomic DNA. Translation: AED97296.1.
BT004112 mRNA. Translation: AAO42135.1.
BT004920 mRNA. Translation: AAO50453.1.
RefSeqiNP_200831.1. NM_125416.3. [Q9LSS3-1]
UniGeneiAt.29175.

3D structure databases

ProteinModelPortaliQ9LSS3.
SMRiQ9LSS3. Positions 67-209.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiQ9LSS3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G60230.1; AT5G60230.1; AT5G60230. [Q9LSS3-1]
AT5G60230.2; AT5G60230.2; AT5G60230.
GeneIDi836145.
KEGGiath:AT5G60230.

Organism-specific databases

GeneFarmi5165. 493.
TAIRiAT5G60230.

Phylogenomic databases

eggNOGiNOG305469.
HOGENOMiHOG000030044.
InParanoidiQ9LSS3.
KOiK15322.
PhylomeDBiQ9LSS3.

Enzyme and pathway databases

BioCyciARA:AT5G60230-MONOMER.
ARA:GQT-2328-MONOMER.

Miscellaneous databases

PROiQ9LSS3.

Gene expression databases

GenevestigatoriQ9LSS3.

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.
[Graphical view]
PfamiPF01974. tRNA_int_endo. 1 hit.
PF02778. tRNA_int_endo_N. 1 hit.
[Graphical view]
SUPFAMiSSF53032. SSF53032. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Identification of two catalytic subunits of tRNA splicing endonuclease from Arabidopsis thaliana."
    Akama K., Junker V., Beier H.
    Gene 257:177-185(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: cv. Columbia and cv. Landsberg erecta.
  2. "Structural analysis of Arabidopsis thaliana chromosome 5. XI."
    Kaneko T., Katoh T., Asamizu E., Sato S., Nakamura Y., Kotani H., Tabata S.
    Submitted (APR-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.

Entry informationi

Entry nameiSEN22_ARATH
AccessioniPrimary (citable) accession number: Q9LSS3
Secondary accession number(s): Q3E887
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 6, 2005
Last sequence update: October 1, 2000
Last modified: January 7, 2015
This is version 85 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. 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.