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    dtd D-aminoacyl-tRNA deacylase [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 948378, updated on 3-Dec-2024

    Summary

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    Official Symbol
    dtd
    Official Full Name
    D-aminoacyl-tRNA deacylase
    Primary source
    ECOCYC:EG11852
    Locus tag
    b3887
    See related
    ASAP:ABE-0012690
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
    Lineage
    Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
    Also known as
    ECK3880; yihZ
    Summary
    Dtd is a D-Tyr-tRNATyr deacylase that releases tRNATyr from misaminoacylation with D-tyrosine (in contrast to proper aminoacylation with L-tyrosine) . [More information is available at EcoCyc: EG11852].
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    Genomic context

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    Sequence:
    NC_000913.3 (4077015..4077452)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene DNA-binding transcriptional dual regulator CsqR Neighboring gene alpha-D-glucose-1-phosphate phosphatase YihX Neighboring gene PF03631 family membrane protein YihY Neighboring gene putative fatty acid biosynthesis enzyme FabY Neighboring gene putative DNA-binding transcriptional regulator YiiE Neighboring gene protein YiiF

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_000913.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Formation of D-tyrosyl-tRNATyr accounts for the toxicity of D-tyrosine toward Escherichia coli. Soutourina O, et al. J Biol Chem, 2004 Oct 8. PMID 15292242
    2. A catalytic mechanism for D-Tyr-tRNATyr deacylase based on the crystal structure of Hemophilus influenzae HI0670. Lim K, et al. J Biol Chem, 2003 Apr 11. PMID 12571243, Free PMC Article
    3. Functional characterization of the D-Tyr-tRNATyr deacylase from Escherichia coli. Soutourina J, et al. J Biol Chem, 1999 Jul 2. PMID 10383414
    4. D-Tyrosyl RNA: formation, hydrolysis and utilization for protein synthesis. Calendar R, et al. J Mol Biol, 1967 May 28. PMID 4292198
    5. Role of D-aminoacyl-tRNA deacylase beyond chiral proofreading as a cellular defense against glycine mischarging by AlaRS. Pawar KI, et al. Elife, 2017 Mar 31. PMID 28362257, Free PMC Article

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Here, the authors show that DTD's active site architecture can efficiently edit mischarged Gly-tRNA(Ala) species four orders of magnitude more efficiently than even AlaRS, the only ubiquitous cellular checkpoint known for clearing the error.
      Title: Role of D-aminoacyl-tRNA deacylase beyond chiral proofreading as a cellular defense against glycine mischarging by AlaRS.
    2. N-terminus verified by Edman degradation on complete protein
      Title: Functional characterization of the D-Tyr-tRNATyr deacylase from Escherichia coli.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables D-aminoacyl-tRNA deacylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables D-aminoacyl-tRNA deacylase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables D-tyrosyl-tRNA(Tyr) deacylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables D-tyrosyl-tRNA(Tyr) deacylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables D-tyrosyl-tRNA(Tyr) deacylase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables Gly-tRNA(Ala) hydrolase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables Gly-tRNA(Ala) hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables Ser(Gly)-tRNA(Ala) hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables aminoacyl-tRNA editing activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables tRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in D-amino acid catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in aminoacyl-tRNA metabolism involved in translational fidelity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to heat IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in tRNA metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tRNA metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    D-aminoacyl-tRNA deacylase
    NP_418323.1

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_000913.3 Reference assembly

      Range
      4077015..4077452
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_418323.1 D-aminoacyl-tRNA deacylase [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_418323.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A7H9SIM8
      Conserved Domains (1) summary
      PRK05273
      Location:1 → 145
      PRK05273; D-tyrosyl-tRNA(Tyr) deacylase; Provisional
    Nucleotide Protein
    Heading Accession and Version

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