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Protein

tRNA-splicing endonuclease

Gene

endA

Organism
Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7)
Status
Reviewed-Annotation score: Annotation score: 2 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.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)DescriptionActionsGraphical viewLength
Active sitei117UniRule annotation1
Active sitei125UniRule annotation1
Active sitei156UniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

tRNA processing

Enzyme and pathway databases

BRENDAi3.1.27.B1. 6166.
4.6.1.16. 6166.

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:STK_03580
OrganismiSulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7)
Taxonomic identifieri273063 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeSulfolobus
Proteomesi
  • UP000001015 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001094821 – 180tRNA-splicing endonucleaseAdd BLAST180

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

STRINGi273063.ST0358.

Structurei

Secondary structure

1180
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 6Combined sources5
Beta strandi9 – 12Combined sources4
Helixi15 – 25Combined sources11
Beta strandi28 – 30Combined sources3
Helixi39 – 41Combined sources3
Beta strandi46 – 49Combined sources4
Helixi50 – 58Combined sources9
Beta strandi63 – 66Combined sources4
Beta strandi69 – 71Combined sources3
Helixi73 – 83Combined sources11
Helixi87 – 99Combined sources13
Beta strandi103 – 106Combined sources4
Helixi108 – 110Combined sources3
Beta strandi112 – 117Combined sources6
Beta strandi128 – 134Combined sources7
Beta strandi138 – 140Combined sources3
Helixi141 – 144Combined sources4
Beta strandi147 – 149Combined sources3
Turni152 – 155Combined sources4
Beta strandi157 – 163Combined sources7
Turni165 – 167Combined sources3
Beta strandi170 – 178Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2CV8X-ray2.80A/B1-180[»]
ProteinModelPortaliQ975R3.
SMRiQ975R3.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ975R3.

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiarCOG01701. Archaea.
COG1676. LUCA.
HOGENOMiHOG000107823.
KOiK01170.
OMAiDFRLYER.

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.

Q975R3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIGELVKDKI LIKNIEDARL IYKMGYYGKP IGISKPKSAE EINSELILSL
60 70 80 90 100
IEGVYLVKKG KLEIVSNGER LDFERLYQIG VTQIPRFRIL YSVYEDLREK
110 120 130 140 150
GYVVRSGIKY GADFAVYTIG PGIEHAPYLV IALDENSQIS SNEILGFGRV
160 170 180
SHSTRKELIL GIVNLTNGKI RYIMFKWLKM
Length:180
Mass (Da):20,507
Last modified:December 1, 2001 - v1
Checksum:i40615B98F1C05085
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000023 Genomic DNA. Translation: BAK54248.1.
RefSeqiWP_010978320.1. NC_003106.2.

Genome annotation databases

EnsemblBacteriaiBAK54248; BAK54248; STK_03580.
GeneIDi1458281.
KEGGisto:STK_03580.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000023 Genomic DNA. Translation: BAK54248.1.
RefSeqiWP_010978320.1. NC_003106.2.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2CV8X-ray2.80A/B1-180[»]
ProteinModelPortaliQ975R3.
SMRiQ975R3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi273063.ST0358.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAK54248; BAK54248; STK_03580.
GeneIDi1458281.
KEGGisto:STK_03580.

Phylogenomic databases

eggNOGiarCOG01701. Archaea.
COG1676. LUCA.
HOGENOMiHOG000107823.
KOiK01170.
OMAiDFRLYER.

Enzyme and pathway databases

BRENDAi3.1.27.B1. 6166.
4.6.1.16. 6166.

Miscellaneous databases

EvolutionaryTraceiQ975R3.

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_SULTO
AccessioniPrimary (citable) accession number: Q975R3
Secondary accession number(s): F9VMV1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: December 1, 2001
Last modified: November 2, 2016
This is version 90 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

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.