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Protein

tRNA-splicing endonuclease

Gene

endA

Organism
Nanoarchaeum equitans (strain Kin4-M)
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 sitei86UniRule annotation1
Active sitei102UniRule annotation1
Active sitei133UniRule annotation1

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 endonucleaseUniRule annotation (EC:4.6.1.16UniRule annotation)
Alternative name(s):
tRNA-intron endonucleaseUniRule annotation
Gene namesi
Name:endAUniRule annotation
Ordered Locus Names:NEQ205
OrganismiNanoarchaeum equitans (strain Kin4-M)
Taxonomic identifieri228908 [NCBI]
Taxonomic lineageiArchaeaNanoarchaeotaNanoarchaealesNanoarchaeaceaeNanoarchaeum
Proteomesi
  • UP000000578 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001094741 – 154tRNA-splicing endonucleaseAdd BLAST154

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

STRINGi228908.NEQ205.

Structurei

Secondary structure

1154
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi4 – 6Combined sources3
Beta strandi9 – 11Combined sources3
Helixi19 – 28Combined sources10
Helixi43 – 52Combined sources10
Helixi56 – 68Combined sources13
Beta strandi72 – 76Combined sources5
Helixi77 – 79Combined sources3
Beta strandi81 – 86Combined sources6
Turni94 – 96Combined sources3
Beta strandi99 – 102Combined sources4
Beta strandi106 – 111Combined sources6
Beta strandi115 – 117Combined sources3
Helixi118 – 130Combined sources13
Beta strandi135 – 152Combined sources18

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3IEYX-ray2.11A1-154[»]
ProteinModelPortaliQ74MP4.
SMRiQ74MP4.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ74MP4.

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.

Q74MP4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIGYLFGNRV LVDDKELPLI EAYYLLDKGE LEVYEDDKKL SKEEFLKKCL
60 70 80 90 100
TYDERFLIRY KAYKELRDKG YTLGTALKFG ADFRVYDIGV IPKKGKRSER
110 120 130 140 150
EHSKWVLYPV SKDETFDFYE FASKNRVAHS TRKKLLLGIV SDKIEFIEVS

WKKP
Length:154
Mass (Da):18,254
Last modified:July 5, 2004 - v1
Checksum:iAFC04DE8E9F9061E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017199 Genomic DNA. Translation: AAR39058.1.

Genome annotation databases

EnsemblBacteriaiAAR39058; AAR39058; NEQ205.
KEGGineq:NEQ205.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017199 Genomic DNA. Translation: AAR39058.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3IEYX-ray2.11A1-154[»]
ProteinModelPortaliQ74MP4.
SMRiQ74MP4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi228908.NEQ205.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAR39058; AAR39058; NEQ205.
KEGGineq:NEQ205.

Phylogenomic databases

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

Miscellaneous databases

EvolutionaryTraceiQ74MP4.

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_NANEQ
AccessioniPrimary (citable) accession number: Q74MP4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: July 5, 2004
Last modified: November 2, 2016
This is version 70 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.