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Q8ZVI1

- ENDA_PYRAE

UniProt

Q8ZVI1 - ENDA_PYRAE

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Protein

tRNA-splicing endonuclease

Gene

endA

Organism
Pyrobaculum aerophilum (strain ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827)
Status
Reviewed - 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)LengthDescriptionGraphical viewFeature identifierActions
Active sitei120 – 1201UniRule annotation
Active sitei128 – 1281UniRule annotation
Active sitei159 – 1591UniRule 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

BioCyciPAER178306:GCEO-1636-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:PAE2269
OrganismiPyrobaculum aerophilum (strain ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827)
Taxonomic identifieri178306 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiThermoprotealesThermoproteaceaePyrobaculum
ProteomesiUP000002439: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 183183tRNA-splicing endonucleasePRO_0000109476Add
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

STRINGi178306.PAE2269.

Structurei

Secondary structure

1
183
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 54Combined sources
Beta strandi7 – 126Combined sources
Helixi15 – 239Combined sources
Beta strandi28 – 303Combined sources
Helixi38 – 436Combined sources
Beta strandi48 – 514Combined sources
Helixi52 – 609Combined sources
Beta strandi65 – 673Combined sources
Helixi76 – 8611Combined sources
Helixi90 – 10213Combined sources
Beta strandi106 – 1094Combined sources
Helixi111 – 1133Combined sources
Beta strandi115 – 1228Combined sources
Beta strandi124 – 1285Combined sources
Beta strandi131 – 1355Combined sources
Helixi144 – 15310Combined sources
Beta strandi161 – 1666Combined sources
Turni168 – 1703Combined sources
Beta strandi173 – 1808Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2ZYZX-ray1.70B/D1-183[»]
ProteinModelPortaliQ8ZVI1.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ8ZVI1.

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1676.
HOGENOMiHOG000107823.
InParanoidiQ8ZVI1.
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.

Q8ZVI1-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MIGYLRGLAV IVEDVEFARR LYKEGFYGRF LGYDKVKRDE VEKINAPLIL
60 70 80 90 100
GLYEALYLAE KGRLKVMGED GREVAPEELA ALGRERMRNF DEIYKIYKYF
110 120 130 140 150
RDLGYVVKSG LKFGALFSVY EKGPGIDHAP MVVVFLEPDK GISATDITRG
160 170 180
GRLSHSVRKT WTLATVLRQT GEVVLLGFGW ARL
Length:183
Mass (Da):20,775
Last modified:March 1, 2002 - v1
Checksum:iE59B9BAD7352AD33
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009441 Genomic DNA. Translation: AAL64075.1.
RefSeqiNP_559893.1. NC_003364.1.

Genome annotation databases

EnsemblBacteriaiAAL64075; AAL64075; PAE2269.
GeneIDi1464410.
KEGGipai:PAE2269.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009441 Genomic DNA. Translation: AAL64075.1 .
RefSeqi NP_559893.1. NC_003364.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2ZYZ X-ray 1.70 B/D 1-183 [» ]
ProteinModelPortali Q8ZVI1.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 178306.PAE2269.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAL64075 ; AAL64075 ; PAE2269 .
GeneIDi 1464410.
KEGGi pai:PAE2269.

Phylogenomic databases

eggNOGi COG1676.
HOGENOMi HOG000107823.
InParanoidi Q8ZVI1.
KOi K01170.
OMAi ALKFGSH.

Enzyme and pathway databases

BioCyci PAER178306:GCEO-1636-MONOMER.

Miscellaneous databases

EvolutionaryTracei Q8ZVI1.

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. "Genome sequence of the hyperthermophilic crenarchaeon Pyrobaculum aerophilum."
    Fitz-Gibbon S.T., Ladner H., Kim U.-J., Stetter K.O., Simon M.I., Miller J.H.
    Proc. Natl. Acad. Sci. U.S.A. 99:984-989(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827.

Entry informationi

Entry nameiENDA_PYRAE
AccessioniPrimary (citable) accession number: Q8ZVI1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: March 1, 2002
Last modified: November 26, 2014
This is version 72 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

External Data

Dasty 3