Q8ZVI1 (ENDA_PYRAE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
tRNA-splicing endonuclease
EC=3.1.27.9

Alternative name(s):
tRNA-intron endonuclease

Gene names

Name:	endA
Ordered Locus Names:	PAE2269

Organism

Pyrobaculum aerophilum (strain ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827) [Reference proteome] [HAMAP]

Taxonomic identifier

178306 [NCBI]

Taxonomic lineage

cellular organisms › Archaea › Crenarchaeota › Thermoprotei › Thermoproteales › Thermoproteaceae › Pyrobaculum › Pyrobaculum aerophilum

Protein attributes

Sequence length	183 AA.
Sequence status	Complete.
Protein existence	Evidence 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	Endonucleolytic cleavage of pre-tRNA, producing 5'-hydroxy and 2',3'-cyclic phosphate termini, and specifically removing the intron. 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 process	tRNA processing
Molecular function	Endonuclease Hydrolase Nuclease
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	nucleic acid phosphodiester bond hydrolysis Inferred from electronic annotation. Source: GOC tRNA splicing, via endonucleolytic cleavage and ligation Inferred from electronic annotation. Source: HAMAP
Molecular_function	nucleic acid binding Inferred from electronic annotation. Source: InterPro tRNA-intron endonuclease activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 183

183

tRNA-splicing endonuclease HAMAP-Rule MF_01833

PRO_0000109476

Sites

Active site

120

1

By similarity

Active site

128

1

By similarity

Active site

159

1

By similarity

Secondary structure

1

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183

Helix Strand Turn

Details...

Beta strand

2 – 5

4

Beta strand

7 – 12

6

Helix

15 – 23

9

Beta strand

28 – 30

3

Helix

38 – 43

6

Beta strand

48 – 51

4

Helix

52 – 60

9

Beta strand

65 – 67

3

Helix

76 – 86

11

Helix

90 – 102

13

Beta strand

106 – 109

4

Helix

111 – 113

3

Beta strand

115 – 122

8

Beta strand

124 – 128

5

Beta strand

131 – 135

5

Helix

144 – 153

10

Beta strand

161 – 166

6

Turn

168 – 170

3

Beta strand

173 – 180

8

Sequences

	Sequence		Length	Mass (Da)
	Q8ZVI1 [UniParc]. Last modified March 1, 2002. Version 1. Checksum: E59B9BAD7352AD33	FASTA	183	20,775
	10 20 30 40 50 60 MIGYLRGLAV IVEDVEFARR LYKEGFYGRF LGYDKVKRDE VEKINAPLIL GLYEALYLAE 70 80 90 100 110 120 KGRLKVMGED GREVAPEELA ALGRERMRNF DEIYKIYKYF RDLGYVVKSG LKFGALFSVY 130 140 150 160 170 180 EKGPGIDHAP MVVVFLEPDK GISATDITRG GRLSHSVRKT WTLATVLRQT GEVVLLGFGW ARL

References

[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.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AE009441 Genomic DNA. Translation: AAL64075.1.

RefSeq

NP_559893.1. NC_003364.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2ZYZ	X-ray	1.70	B/D	1-183	[»]

ProteinModelPortal

Q8ZVI1.

ModBase

Search...

Protein-protein interaction databases

STRING

178306.PAE2269.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAL64075; AAL64075; PAE2269.

GeneID

1464410.

KEGG

pai:PAE2269.

Phylogenomic databases

eggNOG

COG1676.

HOGENOM

HOG000107823.

KO

K01170.

OMA

GIDHAPM.

ProtClustDB

PRK09297.

Family and domain databases

Gene3D

3.40.1350.10. 1 hit.

HAMAP

MF_01833. EndA_short.

InterPro

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]

Pfam

PF01974. tRNA_int_endo. 1 hit.
PF02778. tRNA_int_endo_N. 1 hit.
[Graphical view]

PIRSF

PIRSF005285. tRNA_splic_archaea. 1 hit.

SUPFAM

SSF53032. tRNA_int_endo_C. 1 hit.
SSF55267. tRNA_int_endo_N. 1 hit.

TIGRFAMs

TIGR00324. endA. 1 hit.

ProtoNet

Search...

Other

EvolutionaryTrace

Q8ZVI1.

Entry information

Entry name

ENDA_PYRAE

Accession

Primary (citable) accession number: Q8ZVI1

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 11, 2004
Last sequence update:	March 1, 2002
Last modified:	May 1, 2013
This is version 62 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program