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Q58819

- ENDA_METJA

UniProt

Q58819 - ENDA_METJA

Protein

tRNA-splicing endonuclease

Gene

endA

Organism
Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 97 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    Functioni

    Endonuclease that removes tRNA introns. 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. Recognizes a pseudosymmetric substrate in which 2 bulged loops of 3 bases are separated by a stem of 4 bp.1 Publication

    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 sitei115 – 1151
    Active sitei125 – 1251
    Active sitei156 – 1561

    GO - Molecular functioni

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

    GO - Biological processi

    1. tRNA splicing, via endonucleolytic cleavage and ligation Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Lyase

    Keywords - Biological processi

    tRNA processing

    Enzyme and pathway databases

    BRENDAi1.14.12.3. 5393.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    tRNA-splicing endonuclease (EC:4.6.1.16)
    Alternative name(s):
    tRNA-intron endonuclease
    Gene namesi
    Name:endA
    Ordered Locus Names:MJ1424
    OrganismiMethanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
    Taxonomic identifieri243232 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaMethanococciMethanococcalesMethanocaldococcaceaeMethanocaldococcus
    ProteomesiUP000000805: Chromosome

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi125 – 1251H → A: Induces a strong decrease in activity. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 179179tRNA-splicing endonucleasePRO_0000109470Add
    BLAST

    Interactioni

    Subunit structurei

    Homotetramer; although the tetramer contains four active sites, only two participate in the cleavage. Therefore, it should be considered as a dimer of dimers.1 Publication

    Protein-protein interaction databases

    STRINGi243232.MJ1424.

    Structurei

    Secondary structure

    1
    179
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi10 – 156
    Beta strandi18 – 214
    Helixi24 – 329
    Beta strandi36 – 383
    Beta strandi43 – 464
    Helixi47 – 559
    Beta strandi59 – 624
    Beta strandi64 – 674
    Helixi71 – 8111
    Helixi85 – 9713
    Beta strandi101 – 1044
    Helixi106 – 1083
    Beta strandi110 – 1156
    Turni121 – 1233
    Beta strandi127 – 1348
    Beta strandi137 – 1393
    Helixi142 – 15312
    Beta strandi157 – 1637
    Beta strandi169 – 1779

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1A79X-ray2.28A/B/C/D9-179[»]
    ProteinModelPortaliQ58819.
    SMRiQ58819. Positions 9-179.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ58819.

    Family & Domainsi

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG1676.
    KOiK01170.
    OMAiALKFGSH.
    PhylomeDBiQ58819.

    Family and domain databases

    Gene3Di3.40.1350.10. 1 hit.
    HAMAPiMF_01833. EndA_short.
    InterProiIPR011856. tRNA_endonuc-like_dom.
    IPR006677. tRNA_intron_Endonuc_cat-like.
    IPR006678. tRNA_intron_Endonuc_N.
    IPR006676. tRNA_splic.
    IPR016442. tRNA_splic_arch_short.
    [Graphical view]
    PfamiPF01974. tRNA_int_endo. 1 hit.
    PF02778. tRNA_int_endo_N. 1 hit.
    [Graphical view]
    PIRSFiPIRSF005285. tRNA_splic_archaea. 1 hit.
    SUPFAMiSSF53032. SSF53032. 1 hit.
    SSF55267. SSF55267. 1 hit.
    TIGRFAMsiTIGR00324. endA. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q58819-1 [UniParc]FASTAAdd to Basket

    « Hide

    MVRDKMGKKI TGLLDGDRVI VFDKNGISKL SARHYGNVEG NFLSLSLVEA    50
    LYLINLGWLE VKYKDNKPLS FEELYEYARN VEERLCLKYL VYKDLRTRGY 100
    IVKTGLKYGA DFRLYERGAN IDKEHSVYLV KVFPEDSSFL LSELTGFVRV 150
    AHSVRKKLLI AIVDADGDIV YYNMTYVKP 179
    Length:179
    Mass (Da):20,664
    Last modified:November 1, 1996 - v1
    Checksum:iBCC4675E4AD21BE6
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L77117 Genomic DNA. Translation: AAB99435.1.
    PIRiG64477.
    RefSeqiNP_248428.1. NC_000909.1.
    WP_010870942.1. NC_000909.1.

    Genome annotation databases

    EnsemblBacteriaiAAB99435; AAB99435; MJ_1424.
    GeneIDi1452328.
    KEGGimja:MJ_1424.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L77117 Genomic DNA. Translation: AAB99435.1 .
    PIRi G64477.
    RefSeqi NP_248428.1. NC_000909.1.
    WP_010870942.1. NC_000909.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1A79 X-ray 2.28 A/B/C/D 9-179 [» ]
    ProteinModelPortali Q58819.
    SMRi Q58819. Positions 9-179.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 243232.MJ1424.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAB99435 ; AAB99435 ; MJ_1424 .
    GeneIDi 1452328.
    KEGGi mja:MJ_1424.

    Phylogenomic databases

    eggNOGi COG1676.
    KOi K01170.
    OMAi ALKFGSH.
    PhylomeDBi Q58819.

    Enzyme and pathway databases

    BRENDAi 1.14.12.3. 5393.

    Miscellaneous databases

    EvolutionaryTracei Q58819.

    Family and domain databases

    Gene3Di 3.40.1350.10. 1 hit.
    HAMAPi MF_01833. EndA_short.
    InterProi IPR011856. tRNA_endonuc-like_dom.
    IPR006677. tRNA_intron_Endonuc_cat-like.
    IPR006678. tRNA_intron_Endonuc_N.
    IPR006676. tRNA_splic.
    IPR016442. tRNA_splic_arch_short.
    [Graphical view ]
    Pfami PF01974. tRNA_int_endo. 1 hit.
    PF02778. tRNA_int_endo_N. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF005285. tRNA_splic_archaea. 1 hit.
    SUPFAMi SSF53032. SSF53032. 1 hit.
    SSF55267. SSF55267. 1 hit.
    TIGRFAMsi TIGR00324. endA. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440.
    2. "RNA-protein interactions of an archaeal homotetrameric splicing endoribonuclease with an exceptional evolutionary history."
      Lykke-Andersen J., Garrett R.A.
      EMBO J. 16:6290-6300(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBUNIT, MUTAGENESIS OF HIS-125.
    3. "Crystal structure and evolution of a transfer RNA splicing enzyme."
      Li H., Trotta C.R., Abelson J.
      Science 280:279-284(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS).

    Entry informationi

    Entry nameiENDA_METJA
    AccessioniPrimary (citable) accession number: Q58819
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 15, 1998
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 97 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Methanococcus jannaschii
      Methanococcus jannaschii: entries and gene names
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3