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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: 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.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei115 – 1151
Active sitei125 – 1251
Active sitei156 – 1561

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

tRNA processing

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 Componenti: 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 – 156Combined sources
Beta strandi18 – 214Combined sources
Helixi24 – 329Combined sources
Beta strandi36 – 383Combined sources
Beta strandi43 – 464Combined sources
Helixi47 – 559Combined sources
Beta strandi59 – 624Combined sources
Beta strandi64 – 674Combined sources
Helixi71 – 8111Combined sources
Helixi85 – 9713Combined sources
Beta strandi101 – 1044Combined sources
Helixi106 – 1083Combined sources
Beta strandi110 – 1156Combined sources
Turni121 – 1233Combined sources
Beta strandi127 – 1348Combined sources
Beta strandi137 – 1393Combined sources
Helixi142 – 15312Combined sources
Beta strandi157 – 1637Combined sources
Beta strandi169 – 1779Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
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.
InParanoidiQ58819.
KOiK01170.
OMAiVRVAHSV.
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]
PANTHERiPTHR21227:SF0. PTHR21227:SF0. 1 hit.
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

        10         20         30         40         50
MVRDKMGKKI TGLLDGDRVI VFDKNGISKL SARHYGNVEG NFLSLSLVEA
60 70 80 90 100
LYLINLGWLE VKYKDNKPLS FEELYEYARN VEERLCLKYL VYKDLRTRGY
110 120 130 140 150
IVKTGLKYGA DFRLYERGAN IDKEHSVYLV KVFPEDSSFL LSELTGFVRV
160 170
AHSVRKKLLI AIVDADGDIV YYNMTYVKP
Length:179
Mass (Da):20,664
Last modified:November 1, 1996 - v1
Checksum:iBCC4675E4AD21BE6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
Links Updated
L77117 Genomic DNA. Translation: AAB99435.1.
PIRiG64477.
RefSeqiNP_248428.1. NC_000909.1.
WP_010870942.1. NC_000909.1.

3D structure databases

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

Protein-protein interaction databases

STRINGi243232.MJ1424.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Phylogenomic databases

eggNOGiCOG1676.
InParanoidiQ58819.
KOiK01170.
OMAiVRVAHSV.
PhylomeDBiQ58819.

Miscellaneous databases

EvolutionaryTraceiQ58819.

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]
PANTHERiPTHR21227:SF0. PTHR21227:SF0. 1 hit.
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.
ProtoNetiSearch...

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: April 1, 2015
This is version 102 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.