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Q5JHP5

- ENDA_THEKO

UniProt

Q5JHP5 - ENDA_THEKO

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Protein

tRNA-splicing endonuclease

Gene

endA

Organism
Thermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi

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.UniRule annotation

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 sitei107 – 1071UniRule annotation
Active sitei114 – 1141UniRule annotation
Active sitei145 – 1451UniRule 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
Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

tRNA processing

Enzyme and pathway databases

BioCyciTKOD69014:GH72-2261-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:TK2215
OrganismiThermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Taxonomic identifieri69014 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
ProteomesiUP000000536: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 168168tRNA-splicing endonucleasePRO_0000109479Add
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.UniRule annotation

Protein-protein interaction databases

STRINGi69014.TK2215.

Structurei

3D structure databases

ProteinModelPortaliQ5JHP5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1676.
HOGENOMiHOG000107823.
InParanoidiQ5JHP5.
KOiK01170.
OMAiALKFGSH.

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.

Q5JHP5 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MIIFYLSGDR VFSTDQNAIN GLYNKRYFGK VVEGKLFLSL LEAAYLVERG
60 70 80 90 100
KIEVRDGKRK LSLEEIMNLG RARDELFDAK YLVYKDLRDR GYTVKSGLKF
110 120 130 140 150
GSHFRVYRRG MEEHSEWLVW VVPENSRLSP NDITARVRVA HGVRKNMIMA
160
IVDEDADVTY YKVEWVKF
Length:168
Mass (Da):19,697
Last modified:February 15, 2005 - v1
Checksum:i53A203C396806205
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP006878 Genomic DNA. Translation: BAD86404.1.
RefSeqiYP_184628.1. NC_006624.1.

Genome annotation databases

EnsemblBacteriaiBAD86404; BAD86404; TK2215.
GeneIDi3235698.
KEGGitko:TK2215.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP006878 Genomic DNA. Translation: BAD86404.1 .
RefSeqi YP_184628.1. NC_006624.1.

3D structure databases

ProteinModelPortali Q5JHP5.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 69014.TK2215.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD86404 ; BAD86404 ; TK2215 .
GeneIDi 3235698.
KEGGi tko:TK2215.

Phylogenomic databases

eggNOGi COG1676.
HOGENOMi HOG000107823.
InParanoidi Q5JHP5.
KOi K01170.
OMAi ALKFGSH.

Enzyme and pathway databases

BioCyci TKOD69014:GH72-2261-MONOMER.

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. "Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes."
    Fukui T., Atomi H., Kanai T., Matsumi R., Fujiwara S., Imanaka T.
    Genome Res. 15:352-363(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-918 / JCM 12380 / KOD1.

Entry informationi

Entry nameiENDA_THEKO
AccessioniPrimary (citable) accession number: Q5JHP5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 30, 2005
Last sequence update: February 15, 2005
Last modified: October 29, 2014
This is version 66 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3