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Q5Z6B1

- SEN2_ORYSJ

UniProt

Q5Z6B1 - SEN2_ORYSJ

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Protein

Probable tRNA-splicing endonuclease subunit Sen2

Gene

Os06g0530700

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed - 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 sitei157 – 1571By similarity
Active sitei165 – 1651By similarity
Active sitei204 – 2041By 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

Names & Taxonomyi

Protein namesi
Recommended name:
Probable tRNA-splicing endonuclease subunit Sen2 (EC:4.6.1.16)
Alternative name(s):
tRNA-intron endonuclease Sen2
Gene namesi
Ordered Locus Names:Os06g0530700, LOC_Os06g33980
ORF Names:P0410C01.17, P0438E12.38
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza
ProteomesiUP000000763: Chromosome 6

Organism-specific databases

GrameneiQ5Z6B1.

Subcellular locationi

Nucleus By similarity. Membrane Curated; Single-pass membrane protein Curated

GO - Cellular componenti

  1. integral component of membrane Source: UniProtKB-KW
  2. nucleus Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 293293Probable tRNA-splicing endonuclease subunit Sen2PRO_0000109458Add
BLAST

Expressioni

Gene expression databases

ExpressionAtlasiQ5Z6B1. baseline.

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi39947.LOC_Os06g33980.2.

Structurei

3D structure databases

ProteinModelPortaliQ5Z6B1.
ModBaseiSearch...
MobiDBiSearch...

Transmembrane

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei267 – 28721HelicalSequence AnalysisAdd
BLAST

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi170 – 1734Poly-Val
Compositional biasi212 – 2154Poly-Ser

Sequence similaritiesi

Belongs to the tRNA-intron endonuclease family.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiCOG1676.
InParanoidiQ5Z6B1.
KOiK15322.
OMAiTITRWSP.

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.

Q5Z6B1-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MDLPGPRWKK GKDGKDFASL AAANPMSAIV SELKASFISS KPVAILSGPG
60 70 80 90 100
GSAVLGVGPE QAVILNRAAF GHAIENATAQ KHWFQLSPEE VFYLCHALNC
110 120 130 140 150
IRVDSLDNKQ MSEIELWDYF RSGSESFPEM YKAYAHLRLK NWVVRSGLQY
160 170 180 190 200
GADFVAYRHH PALVHSEFAV VVVPEGAEFG NRCGRLEVWS DLLCALRASG
210 220 230 240 250
SVAKTLLVLT ISSSSKCELS SPDCLEQLVV HERTITRWIL QQCREQRCEP
260 270 280 290
SRDEVNREEL IIEKESVVFN HWGVILGFTV LSGLLVYRLK FRQ
Length:293
Mass (Da):32,737
Last modified:November 23, 2004 - v1
Checksum:i673DE4101F5408C1
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP004749 Genomic DNA. Translation: BAD54220.1.
AP005450 Genomic DNA. Translation: BAD54480.1.
AK059057 mRNA. No translation available.
AK102915 mRNA. No translation available.
RefSeqiNP_001057781.1. NM_001064316.1.
UniGeneiOs.24713.

Genome annotation databases

EnsemblPlantsiOS06T0530700-02; OS06T0530700-02; OS06G0530700.
GeneIDi4341203.
KEGGiosa:4341203.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP004749 Genomic DNA. Translation: BAD54220.1 .
AP005450 Genomic DNA. Translation: BAD54480.1 .
AK059057 mRNA. No translation available.
AK102915 mRNA. No translation available.
RefSeqi NP_001057781.1. NM_001064316.1.
UniGenei Os.24713.

3D structure databases

ProteinModelPortali Q5Z6B1.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 39947.LOC_Os06g33980.2.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi OS06T0530700-02 ; OS06T0530700-02 ; OS06G0530700 .
GeneIDi 4341203.
KEGGi osa:4341203.

Organism-specific databases

Gramenei Q5Z6B1.

Phylogenomic databases

eggNOGi COG1676.
InParanoidi Q5Z6B1.
KOi K15322.
OMAi TITRWSP.

Gene expression databases

ExpressionAtlasi Q5Z6B1. baseline.

Family and domain databases

Gene3Di 3.40.1350.10. 1 hit.
InterProi IPR011856. tRNA_endonuc-like_dom.
IPR006677. tRNA_intron_Endonuc_cat-like.
IPR006678. tRNA_intron_Endonuc_N.
[Graphical view ]
Pfami PF01974. tRNA_int_endo. 1 hit.
PF02778. tRNA_int_endo_N. 1 hit.
[Graphical view ]
SUPFAMi SSF53032. SSF53032. 1 hit.
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  2. "Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice."
    The rice full-length cDNA consortium
    Science 301:376-379(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Nipponbare.

Entry informationi

Entry nameiSEN2_ORYSJ
AccessioniPrimary (citable) accession number: Q5Z6B1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 6, 2005
Last sequence update: November 23, 2004
Last modified: October 29, 2014
This is version 60 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. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3