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O29362

- ENDA_ARCFU

UniProt

O29362 - ENDA_ARCFU

Protein

tRNA-splicing endonuclease

Gene

endA

Organism
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 94 (01 Oct 2014)
      Sequence version 1 (01 Jan 1998)
      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.

    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.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei246 – 2461UniRule annotation
    Active sitei257 – 2571UniRule annotation
    Active sitei287 – 2871UniRule annotation

    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

    BioCyciAFUL224325:GJBC-922-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    tRNA-splicing endonucleaseUniRule annotation (EC:4.6.1.16UniRule annotation)
    Alternative name(s):
    tRNA-intron endonucleaseUniRule annotation
    Gene namesi
    Name:endAUniRule annotation
    Ordered Locus Names:AF_0900
    OrganismiArchaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
    Taxonomic identifieri224325 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeArchaeoglobus
    ProteomesiUP000002199: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 305305tRNA-splicing endonucleasePRO_0000109484Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.

    Protein-protein interaction databases

    STRINGi224325.AF0900.

    Structurei

    Secondary structure

    1
    305
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi4 – 107
    Helixi13 – 186
    Beta strandi21 – 244
    Beta strandi27 – 304
    Helixi32 – 409
    Helixi49 – 5911
    Beta strandi60 – 623
    Helixi63 – 7513
    Beta strandi81 – 833
    Beta strandi86 – 9712
    Helixi104 – 1107
    Turni111 – 1133
    Beta strandi118 – 1225
    Beta strandi128 – 1347
    Beta strandi149 – 1546
    Beta strandi157 – 1615
    Helixi164 – 1674
    Beta strandi172 – 1754
    Beta strandi178 – 1814
    Helixi183 – 1919
    Beta strandi195 – 1973
    Helixi202 – 21211
    Helixi216 – 22813
    Beta strandi232 – 2354
    Helixi237 – 2393
    Beta strandi241 – 2477
    Helixi252 – 2576
    Beta strandi259 – 2646
    Helixi272 – 28413
    Beta strandi288 – 2936
    Beta strandi296 – 3038

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1R0VX-ray2.00A/B/C/D1-305[»]
    1R11X-ray2.70A/B1-305[»]
    1RLVX-ray3.00A/B1-305[»]
    2GJWX-ray2.85A/B/C/D2-305[»]
    3P1YX-ray2.05A/B/C/D1-305[»]
    ProteinModelPortaliO29362.
    SMRiO29362. Positions 2-305.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiO29362.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the tRNA-intron endonuclease family. Archaeal long subfamily.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG1676.
    KOiK01170.
    OMAiRGFVVKT.

    Family and domain databases

    Gene3Di3.40.1350.10. 2 hits.
    HAMAPiMF_01834. EndA_long.
    InterProiIPR011856. tRNA_endonuc-like_dom.
    IPR006677. tRNA_intron_Endonuc_cat-like.
    IPR006678. tRNA_intron_Endonuc_N.
    IPR006676. tRNA_splic.
    IPR023516. tRNA_splic_arch_long.
    [Graphical view]
    PfamiPF01974. tRNA_int_endo. 1 hit.
    PF02778. tRNA_int_endo_N. 1 hit.
    [Graphical view]
    SUPFAMiSSF53032. SSF53032. 2 hits.
    SSF55267. SSF55267. 2 hits.
    TIGRFAMsiTIGR00324. endA. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    O29362-1 [UniParc]FASTAAdd to Basket

    « Hide

    MIGGDFAVVK AKKSLERRGF GVKRGDKIYL HPLEVVYLQI KGIESFGELE    50
    DVLSWAESRM EDFSTYYFVY EDLRDRGNKV KIQGEFLLTK KPYLPISERK 100
    TIRMEEIAEK ARNFDELRLA VVDEESEITY FRVYEPDMMG EQKEELPEIA 150
    GILSDEYVIT KQTEIFSRYF YGSEKGDLVT LSLIESLYLL DLGKLNLLNA 200
    DREELVKRAR EVERNFDRRY EVYRNLKERG FVVKTGFKFG SEFRVYRKVE 250
    SVDDLPHSEY LVDIADSREI RLIDLARAVR LAQNVRKRMV FAYGKNYLCF 300
    ERVKV 305
    Length:305
    Mass (Da):35,959
    Last modified:January 1, 1998 - v1
    Checksum:iDC0B5A5DEBD99E35
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000782 Genomic DNA. Translation: AAB90338.1.
    PIRiD69362.
    RefSeqiNP_069733.1. NC_000917.1.
    WP_010878400.1. NC_000917.1.

    Genome annotation databases

    EnsemblBacteriaiAAB90338; AAB90338; AF_0900.
    GeneIDi1484123.
    KEGGiafu:AF0900.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000782 Genomic DNA. Translation: AAB90338.1 .
    PIRi D69362.
    RefSeqi NP_069733.1. NC_000917.1.
    WP_010878400.1. NC_000917.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1R0V X-ray 2.00 A/B/C/D 1-305 [» ]
    1R11 X-ray 2.70 A/B 1-305 [» ]
    1RLV X-ray 3.00 A/B 1-305 [» ]
    2GJW X-ray 2.85 A/B/C/D 2-305 [» ]
    3P1Y X-ray 2.05 A/B/C/D 1-305 [» ]
    ProteinModelPortali O29362.
    SMRi O29362. Positions 2-305.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 224325.AF0900.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAB90338 ; AAB90338 ; AF_0900 .
    GeneIDi 1484123.
    KEGGi afu:AF0900.

    Phylogenomic databases

    eggNOGi COG1676.
    KOi K01170.
    OMAi RGFVVKT.

    Enzyme and pathway databases

    BioCyci AFUL224325:GJBC-922-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei O29362.

    Family and domain databases

    Gene3Di 3.40.1350.10. 2 hits.
    HAMAPi MF_01834. EndA_long.
    InterProi IPR011856. tRNA_endonuc-like_dom.
    IPR006677. tRNA_intron_Endonuc_cat-like.
    IPR006678. tRNA_intron_Endonuc_N.
    IPR006676. tRNA_splic.
    IPR023516. tRNA_splic_arch_long.
    [Graphical view ]
    Pfami PF01974. tRNA_int_endo. 1 hit.
    PF02778. tRNA_int_endo_N. 1 hit.
    [Graphical view ]
    SUPFAMi SSF53032. SSF53032. 2 hits.
    SSF55267. SSF55267. 2 hits.
    TIGRFAMsi TIGR00324. endA. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus."
      Klenk H.-P., Clayton R.A., Tomb J.-F., White O., Nelson K.E., Ketchum K.A., Dodson R.J., Gwinn M.L., Hickey E.K., Peterson J.D., Richardson D.L., Kerlavage A.R., Graham D.E., Kyrpides N.C., Fleischmann R.D., Quackenbush J., Lee N.H., Sutton G.G.
      , Gill S.R., Kirkness E.F., Dougherty B.A., McKenney K., Adams M.D., Loftus B.J., Peterson S.N., Reich C.I., McNeil L.K., Badger J.H., Glodek A., Zhou L., Overbeek R., Gocayne J.D., Weidman J.F., McDonald L.A., Utterback T.R., Cotton M.D., Spriggs T., Artiach P., Kaine B.P., Sykes S.M., Sadow P.W., D'Andrea K.P., Bowman C., Fujii C., Garland S.A., Mason T.M., Olsen G.J., Fraser C.M., Smith H.O., Woese C.R., Venter J.C.
      Nature 390:364-370(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126.
    2. "Crystal structure of a dimeric archaeal splicing endonuclease."
      Li H., Abelson J.
      J. Mol. Biol. 302:639-648(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS).

    Entry informationi

    Entry nameiENDA_ARCFU
    AccessioniPrimary (citable) accession number: O29362
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 15, 1998
    Last sequence update: January 1, 1998
    Last modified: October 1, 2014
    This is version 94 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. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3