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Q9YBF1 (ENDA_AERPE) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 70. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
tRNA-splicing endonuclease

EC=4.6.1.16
Alternative name(s):
tRNA-intron endonuclease
Gene names
Name:endA
Ordered Locus Names:APE_1646.1
OrganismAeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1) [Complete proteome] [HAMAP]
Taxonomic identifier272557 [NCBI]
Taxonomic lineageArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeAeropyrum

Protein attributes

Sequence length186 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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 By similarity. HAMAP-Rule MF_01833

Catalytic activity

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. HAMAP-Rule MF_01833

Subunit structure

Homotetramer; although the tetramer contains four active sites, only two participate in the cleavage. Therefore, it should be considered as a dimer of dimers By similarity.

Sequence similarities

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

Ontologies

Keywords
   Biological processtRNA processing
   Molecular functionLyase
   Technical term3D-structure
Complete proteome
Gene Ontology (GO)
   Biological_processtRNA splicing, via endonucleolytic cleavage and ligation

Inferred from electronic annotation. Source: UniProtKB-HAMAP

   Molecular_functionnucleic acid binding

Inferred from electronic annotation. Source: InterPro

tRNA-intron endonuclease activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 186186tRNA-splicing endonuclease HAMAP-Rule MF_01833
PRO_0000109469

Sites

Active site1251 By similarity
Active site1331 By similarity
Active site1641 By similarity

Secondary structure

.................................... 186
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q9YBF1 [UniParc].

Last modified June 26, 2007. Version 2.
Checksum: 3377457A91F479B9

FASTA18620,602
        10         20         30         40         50         60 
MGDRCAPIKA SGVLIGDSVL VTDVEQARSL YSCGYYGQPL DVEKPRGADF EGPLRLSLIE 

        70         80         90        100        110        120 
SLYLAEKGVL EVAKPDGSSV GVEDLRTAVR GNPRFSMLYN IYRDLRERGF VVRSGLKFGS 

       130        140        150        160        170        180 
DFAVYRLGPG IDHAPFIVHA YSPEDNIDPV EIVRAGRLSH SVRKKFVFAV TRGGDVSYLM 


IDWFRP 

« Hide

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
BA000002 Genomic DNA. Translation: BAA80647.2.
PIRB72545.
RefSeqNP_148074.2. NC_000854.2.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
3AJVX-ray1.70B/D1-186[»]
3P1YX-ray2.05A/B/C/D39-53[»]
3P1ZX-ray2.80B/D/F/H/J/L1-186[»]
ProteinModelPortalQ9YBF1.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING272557.APE_1646.1.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAA80647; BAA80647; APE_1646.1.
GeneID1446148.
KEGGape:APE_1646.1.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1676.
HOGENOMHOG000107823.
KOK01170.
ProtClustDBPRK09297.

Enzyme and pathway databases

BioCycAPER272557:GJD6-1118-MONOMER.

Family and domain databases

Gene3D3.40.1350.10. 1 hit.
HAMAPMF_01833. EndA_short.
InterProIPR011856. 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]
PfamPF01974. tRNA_int_endo. 1 hit.
PF02778. tRNA_int_endo_N. 1 hit.
[Graphical view]
PIRSFPIRSF005285. tRNA_splic_archaea. 1 hit.
SUPFAMSSF53032. SSF53032. 1 hit.
SSF55267. SSF55267. 1 hit.
TIGRFAMsTIGR00324. endA. 1 hit.
ProtoNetSearch...

Other

EvolutionaryTraceQ9YBF1.

Entry information

Entry nameENDA_AERPE
AccessionPrimary (citable) accession number: Q9YBF1
Entry history
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: June 26, 2007
Last modified: April 16, 2014
This is version 70 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references