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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)DescriptionActionsGraphical viewLength
Active sitei1151
Active sitei1251
Active sitei1561

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
Proteomesi
  • UP000000805 Componenti: Chromosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi125H → A: Induces a strong decrease in activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001094701 – 179tRNA-splicing endonucleaseAdd BLAST179

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.MJ_1424.

Structurei

Secondary structure

1179
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi10 – 15Combined sources6
Beta strandi18 – 21Combined sources4
Helixi24 – 32Combined sources9
Beta strandi36 – 38Combined sources3
Beta strandi43 – 46Combined sources4
Helixi47 – 55Combined sources9
Beta strandi59 – 62Combined sources4
Beta strandi64 – 67Combined sources4
Helixi71 – 81Combined sources11
Helixi85 – 97Combined sources13
Beta strandi101 – 104Combined sources4
Helixi106 – 108Combined sources3
Beta strandi110 – 115Combined sources6
Turni121 – 123Combined sources3
Beta strandi127 – 134Combined sources8
Beta strandi137 – 139Combined sources3
Helixi142 – 153Combined sources12
Beta strandi157 – 163Combined sources7
Beta strandi169 – 177Combined sources9

3D structure databases

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

Miscellaneous databases

EvolutionaryTraceiQ58819.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiarCOG01701. Archaea.
COG1676. LUCA.
InParanoidiQ58819.
KOiK01170.
OMAiDFRLYER.
PhylomeDBiQ58819.

Family and domain databases

Gene3Di3.40.1350.10. 1 hit.
HAMAPiMF_01833. EndA_short. 1 hit.
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. PTHR21227. 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.

Genome annotation databases

EnsemblBacteriaiAAB99435; AAB99435; MJ_1424.
KEGGimja:MJ_1424.

Cross-referencesi

Sequence databases

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

3D structure databases

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

Protein-protein interaction databases

STRINGi243232.MJ_1424.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB99435; AAB99435; MJ_1424.
KEGGimja:MJ_1424.

Phylogenomic databases

eggNOGiarCOG01701. Archaea.
COG1676. LUCA.
InParanoidiQ58819.
KOiK01170.
OMAiDFRLYER.
PhylomeDBiQ58819.

Miscellaneous databases

EvolutionaryTraceiQ58819.

Family and domain databases

Gene3Di3.40.1350.10. 1 hit.
HAMAPiMF_01833. EndA_short. 1 hit.
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. PTHR21227. 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...

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: November 2, 2016
This is version 111 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

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 one 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.