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truD [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 947214, updated on 11-Sep-2024

Summary

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Official Symbol
truD
Primary source
ECOCYC:G7422
Locus tag
b2745
See related
ASAP:ABE-0009011
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
ECK2740; ygbO
Summary
TruD is responsible for biosynthesis of the pseudouridine13 modification of tRNA(Glu) . [More information is available at EcoCyc: G7422].
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Genomic context

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Sequence:
NC_000913.3 (2870255..2871304, complement)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene murein hydrolase activator NlpD Neighboring gene protein-L-isoaspartate O-methyltransferase Neighboring gene broad specificity 5'(3')-nucleotidase and polyphosphatase Neighboring gene 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase Neighboring gene 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase Neighboring gene cell division protein FtsB

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. Expression, purification, crystallization and preliminary diffraction studies of the tRNA pseudouridine synthase TruD from Escherichia coli. Ericsson UB, et al. Acta Crystallogr D Biol Crystallogr, 2004 Apr. PMID 15039583
  2. Thermofluor-based high-throughput stability optimization of proteins for structural studies. Ericsson UB, et al. Anal Biochem, 2006 Oct 15. PMID 16962548
  3. A new gene involved in stationary-phase survival located at 59 minutes on the Escherichia coli chromosome. Li C, et al. J Bacteriol, 1994 Oct. PMID 7928962, Free PMC Article
  4. Crystal structure of the highly divergent pseudouridine synthase TruD reveals a circular permutation of a conserved fold. Hoang C, et al. RNA, 2004 Jul. PMID 15208439, Free PMC Article
  5. Crystal structure of TruD, a novel pseudouridine synthase with a new protein fold. Kaya Y, et al. J Biol Chem, 2004 Apr 30. PMID 14999002

See all (18) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. N-terminus verified by Edman degradation on complete protein
    Title: A novel unanticipated type of pseudouridine synthase with homologs in bacteria, archaea, and eukarya.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Gene Ontology Provided by EcoCyc

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables catalytic activity, acting on RNA IEA
Inferred from Electronic Annotation
more info
  
enables isomerase activity IEA
Inferred from Electronic Annotation
more info
  
enables pseudouridine synthase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables pseudouridine synthase activity IEA
Inferred from Electronic Annotation
more info
  
enables tRNA pseudouridine synthase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables tRNA pseudouridine(13) synthase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in RNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in pseudouridine synthesis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within pseudouridine synthesis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in pseudouridine synthesis IEA
Inferred from Electronic Annotation
more info
  
involved_in tRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in tRNA pseudouridine synthesis IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within tRNA pseudouridine synthesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
tRNA pseudouridine(13) synthase
NP_417225.1

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
    2870255..2871304 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_417225.1 tRNA pseudouridine(13) synthase [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_417225.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A8S7X8N6
    Conserved Domains (1) summary
    PRK00984
    Location:1 → 341
    truD; tRNA pseudouridine synthase D; Reviewed
Nucleotide Protein
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