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Q5Z6B1

- SEN2_ORYSJ

UniProt

Q5Z6B1 - SEN2_ORYSJ

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
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    • History
      Entry version 59 (01 Oct 2014)
      Sequence version 1 (23 Nov 2004)
      Previous versions | rss
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    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

    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-SubCell

    Keywords - Cellular componenti

    Membrane, Nucleus

    PTM / Processingi

    Molecule processing

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

    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.
    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

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    MDLPGPRWKK GKDGKDFASL AAANPMSAIV SELKASFISS KPVAILSGPG    50
    GSAVLGVGPE QAVILNRAAF GHAIENATAQ KHWFQLSPEE VFYLCHALNC 100
    IRVDSLDNKQ MSEIELWDYF RSGSESFPEM YKAYAHLRLK NWVVRSGLQY 150
    GADFVAYRHH PALVHSEFAV VVVPEGAEFG NRCGRLEVWS DLLCALRASG 200
    SVAKTLLVLT ISSSSKCELS SPDCLEQLVV HERTITRWIL QQCREQRCEP 250
    SRDEVNREEL IIEKESVVFN HWGVILGFTV LSGLLVYRLK FRQ 293
    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.
    KOi K15322.
    OMAi TITRWSP.

    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 1, 2014
    This is version 59 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