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Protein

D-aminoacyl-tRNA deacylase

Gene

dtdA

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

D-aminoacyl-tRNA deacylase with broad substrate specificity. By recycling D-aminoacyl-tRNA to D-amino acids and free tRNA molecules, this enzyme counteracts the toxicity associated with the formation of D-aminoacyl-tRNA entities in vivo.UniRule annotation

Catalytic activityi

A D-aminoacyl-tRNA + H2O = a D-amino acid + tRNA.UniRule annotation

Cofactori

Zn2+UniRule annotationNote: Binds 2 Zn2+ ions per subunit.UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciPHOR70601:GJWR-8-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
D-aminoacyl-tRNA deacylaseUniRule annotation (EC:3.1.1.96UniRule annotation)
Alternative name(s):
D-tyrosyl-tRNA(Tyr) deacylase
Gene namesi
Name:dtdAUniRule annotation
Ordered Locus Names:PH0006
OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Taxonomic identifieri70601 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000752 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 274274D-aminoacyl-tRNA deacylasePRO_0000158972Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi70601.PH0006.

Structurei

Secondary structure

1
274
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 76Combined sources
Helixi11 – 2313Combined sources
Beta strandi27 – 337Combined sources
Beta strandi36 – 416Combined sources
Beta strandi44 – 518Combined sources
Helixi59 – 679Combined sources
Beta strandi72 – 8110Combined sources
Beta strandi88 – 925Combined sources
Beta strandi95 – 984Combined sources
Beta strandi101 – 1044Combined sources
Helixi114 – 12714Combined sources
Beta strandi133 – 1364Combined sources
Beta strandi148 – 15811Combined sources
Helixi159 – 1624Combined sources
Helixi165 – 18521Combined sources
Turni186 – 1883Combined sources
Beta strandi190 – 1956Combined sources
Helixi202 – 2109Combined sources
Beta strandi211 – 2199Combined sources
Helixi221 – 2233Combined sources
Helixi228 – 2358Combined sources
Beta strandi238 – 2403Combined sources
Beta strandi244 – 2496Combined sources
Helixi254 – 26714Combined sources
Beta strandi270 – 2745Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2GFQX-ray1.75A/B/C1-274[»]
ProteinModelPortaliO57774.
SMRiO57774. Positions 1-274.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO57774.

Family & Domainsi

Sequence similaritiesi

Belongs to the DtdA deacylase family.UniRule annotation

Phylogenomic databases

eggNOGiarCOG01616. Archaea.
COG1650. LUCA.
HOGENOMiHOG000015484.
KOiK09716.
OMAiELNDLGW.

Family and domain databases

HAMAPiMF_00562. Deacylase_DtdA. 1 hit.
InterProiIPR018033. Deacylase_DtdA_archaea.
IPR007508. DtdA.
[Graphical view]
PfamiPF04414. tRNA_deacylase. 1 hit.
[Graphical view]
PIRSFiPIRSF016210. UCP016210. 1 hit.

Sequencei

Sequence statusi: Complete.

O57774-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKVIMTTKVD KASMNIMNKL IENFGFKETE YVFDGNPVYK RGDVLILTTN
60 70 80 90 100
DEMIYYDYLD REIENQLGFK PEIIAFASRH SSKQKLPALT THVTGNWGKA
110 120 130 140 150
MYGGKDESFA VAIPSAMKLS LLKMSELNDL GWTVCYEATH HGPTELEVPS
160 170 180 190 200
FFIEIGSSEE EWINDRAGEI IAETIIYVLD NYEKGRSKFK VALGIGGGHY
210 220 230 240 250
APKQTKRALE GDLAFGHILP KYAQPVSRDV MIKALNRFGE KVEAIYVDWK
260 270
GSRGETRQLA KSLAQELGLE FIKD
Length:274
Mass (Da):30,890
Last modified:August 1, 1998 - v1
Checksum:i53BC968C224DCBB9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA29074.1.
PIRiC71218.
RefSeqiWP_010884126.1. NC_000961.1.

Genome annotation databases

EnsemblBacteriaiBAA29074; BAA29074; BAA29074.
GeneIDi1443908.
KEGGipho:PH0006.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA29074.1.
PIRiC71218.
RefSeqiWP_010884126.1. NC_000961.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2GFQX-ray1.75A/B/C1-274[»]
ProteinModelPortaliO57774.
SMRiO57774. Positions 1-274.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi70601.PH0006.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA29074; BAA29074; BAA29074.
GeneIDi1443908.
KEGGipho:PH0006.

Phylogenomic databases

eggNOGiarCOG01616. Archaea.
COG1650. LUCA.
HOGENOMiHOG000015484.
KOiK09716.
OMAiELNDLGW.

Enzyme and pathway databases

BioCyciPHOR70601:GJWR-8-MONOMER.

Miscellaneous databases

EvolutionaryTraceiO57774.

Family and domain databases

HAMAPiMF_00562. Deacylase_DtdA. 1 hit.
InterProiIPR018033. Deacylase_DtdA_archaea.
IPR007508. DtdA.
[Graphical view]
PfamiPF04414. tRNA_deacylase. 1 hit.
[Graphical view]
PIRSFiPIRSF016210. UCP016210. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiDTDA_PYRHO
AccessioniPrimary (citable) accession number: O57774
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 6, 2002
Last sequence update: August 1, 1998
Last modified: September 7, 2016
This is version 94 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

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.