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Protein

tRNA-splicing endonuclease

Gene

endA

Organism
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
Status
Reviewed-Annotation score: Annotation score: 3 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.

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 sitei246UniRule annotation1
Active sitei257UniRule annotation1
Active sitei287UniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

tRNA processing

Enzyme and pathway databases

BRENDAi4.6.1.16. 414.

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:AF_0900
OrganismiArchaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
Taxonomic identifieri224325 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeArchaeoglobus
Proteomesi
  • UP000002199 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001094841 – 305tRNA-splicing endonucleaseAdd BLAST305

Proteomic databases

PRIDEiO29362.

Interactioni

Subunit structurei

Homodimer.

Protein-protein interaction databases

STRINGi224325.AF0900.

Structurei

Secondary structure

1305
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi4 – 10Combined sources7
Helixi13 – 18Combined sources6
Beta strandi21 – 24Combined sources4
Beta strandi27 – 30Combined sources4
Helixi32 – 40Combined sources9
Helixi49 – 59Combined sources11
Beta strandi60 – 62Combined sources3
Helixi63 – 75Combined sources13
Beta strandi81 – 83Combined sources3
Beta strandi86 – 97Combined sources12
Helixi104 – 110Combined sources7
Turni111 – 113Combined sources3
Beta strandi118 – 122Combined sources5
Beta strandi128 – 134Combined sources7
Beta strandi149 – 154Combined sources6
Beta strandi157 – 161Combined sources5
Helixi164 – 167Combined sources4
Beta strandi172 – 175Combined sources4
Beta strandi178 – 181Combined sources4
Helixi183 – 191Combined sources9
Beta strandi195 – 197Combined sources3
Helixi202 – 212Combined sources11
Helixi216 – 228Combined sources13
Beta strandi232 – 235Combined sources4
Helixi237 – 239Combined sources3
Beta strandi241 – 247Combined sources7
Helixi252 – 257Combined sources6
Beta strandi259 – 264Combined sources6
Helixi272 – 284Combined sources13
Beta strandi288 – 293Combined sources6
Beta strandi296 – 303Combined sources8

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1R0VX-ray2.00A/B/C/D1-305[»]
1R11X-ray2.70A/B1-305[»]
1RLVX-ray3.00A/B1-305[»]
2GJWX-ray2.85A/B/C/D2-305[»]
3P1YX-ray2.05A/B/C/D1-305[»]
ProteinModelPortaliO29362.
SMRiO29362.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO29362.

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiarCOG01701. Archaea.
COG1676. LUCA.
KOiK01170.
OMAiRGFVVKT.

Family and domain databases

Gene3Di3.40.1350.10. 2 hits.
HAMAPiMF_01834. EndA_long. 1 hit.
InterProiIPR011856. tRNA_endonuc-like_dom.
IPR006677. tRNA_intron_Endonuc_cat-like.
IPR006678. tRNA_intron_Endonuc_N.
IPR006676. tRNA_splic.
IPR023516. tRNA_splic_arch_long.
[Graphical view]
PANTHERiPTHR21227. PTHR21227. 1 hit.
PfamiPF01974. tRNA_int_endo. 1 hit.
PF02778. tRNA_int_endo_N. 1 hit.
[Graphical view]
SUPFAMiSSF53032. SSF53032. 2 hits.
SSF55267. SSF55267. 2 hits.
TIGRFAMsiTIGR00324. endA. 1 hit.

Sequencei

Sequence statusi: Complete.

O29362-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIGGDFAVVK AKKSLERRGF GVKRGDKIYL HPLEVVYLQI KGIESFGELE
60 70 80 90 100
DVLSWAESRM EDFSTYYFVY EDLRDRGNKV KIQGEFLLTK KPYLPISERK
110 120 130 140 150
TIRMEEIAEK ARNFDELRLA VVDEESEITY FRVYEPDMMG EQKEELPEIA
160 170 180 190 200
GILSDEYVIT KQTEIFSRYF YGSEKGDLVT LSLIESLYLL DLGKLNLLNA
210 220 230 240 250
DREELVKRAR EVERNFDRRY EVYRNLKERG FVVKTGFKFG SEFRVYRKVE
260 270 280 290 300
SVDDLPHSEY LVDIADSREI RLIDLARAVR LAQNVRKRMV FAYGKNYLCF

ERVKV
Length:305
Mass (Da):35,959
Last modified:January 1, 1998 - v1
Checksum:iDC0B5A5DEBD99E35
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000782 Genomic DNA. Translation: AAB90338.1.
PIRiD69362.

Genome annotation databases

EnsemblBacteriaiAAB90338; AAB90338; AF_0900.
KEGGiafu:AF_0900.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000782 Genomic DNA. Translation: AAB90338.1.
PIRiD69362.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1R0VX-ray2.00A/B/C/D1-305[»]
1R11X-ray2.70A/B1-305[»]
1RLVX-ray3.00A/B1-305[»]
2GJWX-ray2.85A/B/C/D2-305[»]
3P1YX-ray2.05A/B/C/D1-305[»]
ProteinModelPortaliO29362.
SMRiO29362.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224325.AF0900.

Proteomic databases

PRIDEiO29362.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB90338; AAB90338; AF_0900.
KEGGiafu:AF_0900.

Phylogenomic databases

eggNOGiarCOG01701. Archaea.
COG1676. LUCA.
KOiK01170.
OMAiRGFVVKT.

Enzyme and pathway databases

BRENDAi4.6.1.16. 414.

Miscellaneous databases

EvolutionaryTraceiO29362.

Family and domain databases

Gene3Di3.40.1350.10. 2 hits.
HAMAPiMF_01834. EndA_long. 1 hit.
InterProiIPR011856. tRNA_endonuc-like_dom.
IPR006677. tRNA_intron_Endonuc_cat-like.
IPR006678. tRNA_intron_Endonuc_N.
IPR006676. tRNA_splic.
IPR023516. tRNA_splic_arch_long.
[Graphical view]
PANTHERiPTHR21227. PTHR21227. 1 hit.
PfamiPF01974. tRNA_int_endo. 1 hit.
PF02778. tRNA_int_endo_N. 1 hit.
[Graphical view]
SUPFAMiSSF53032. SSF53032. 2 hits.
SSF55267. SSF55267. 2 hits.
TIGRFAMsiTIGR00324. endA. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiENDA_ARCFU
AccessioniPrimary (citable) accession number: O29362
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: January 1, 1998
Last modified: November 2, 2016
This is version 105 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.