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Q58819

- ENDA_METJA

UniProt

Q58819 - ENDA_METJA

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Protein
tRNA-splicing endonuclease
Gene
endA, MJ1424
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

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.UniRule annotation

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
Complete GO annotation...

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 endonucleaseUniRule annotation
PRO_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

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.

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

« Hide 'large scale' publications
  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: September 3, 2014
This is version 96 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

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