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rdgB dITP/XTP pyrophosphatase [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 947429, updated on 17-Dec-2024

Summary

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Official Symbol
rdgB
Official Full Name
dITP/XTP pyrophosphatase
Primary source
ECOCYC:G7530
Locus tag
b2954
See related
ASAP:ABE-0009692
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
ECK2949; yggV
Summary
2'-deoxy-N-6-hydroxylaminopurine triphosphate (dHAPTP) is a preferred substrate (Burgis, 2006). [More information is available at EcoGene: EG12982]. Purified RdgB exhibits nucleoside triphosphatase activity toward deoxyinosine triphosphate (dITP) and xanthosine triphosphate (XTP), mutagenic products of purine nucleotide deamination, and may therefore act to reduce the abundance of nucleotides that can be misincorporated during DNA replication . [More information is available at EcoCyc: G7530].
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Genomic context

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Sequence:
NC_000913.3 (3096681..3097274)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene PLP homeostasis protein Neighboring gene uncharacterized protein YggT Neighboring gene DUF167 domain-containing protein YggU Neighboring gene heme chaperone HemW Neighboring gene DUF1202 domain-containing protein YggM Neighboring gene L-asparaginase 2

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. Chromosomal fragmentation is the major consequence of the rdgB defect in Escherichia coli. Lukas L, et al. Genetics, 2006 Feb. PMID 16322510, Free PMC Article
  2. Suppression of the defects in rdgB mutants of Escherichia coli K-12 by the cloned purA gene. Clyman J, et al. J Bacteriol, 1991 Feb. PMID 1991730, Free PMC Article
  3. Escherichia coli K-12 mutants in which viability is dependent on recA function. Clyman J, et al. J Bacteriol, 1987 Sep. PMID 2442140, Free PMC Article
  4. Hypoxanthine incorporation is nonmutagenic in Escherichia coli. Budke B, et al. J Bacteriol, 2006 Sep. PMID 16952947, Free PMC Article
  5. Identification of the dITP- and XTP-hydrolyzing protein from Escherichia coli. Chung JH, et al. J Biochem Mol Biol, 2002 Jul 31. PMID 12297000

See all (19) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. These data provide insight into the molecular mechanisms of the substrate selectivity and catalysis of RdgB and other ITPases.
    Title: Molecular basis of the antimutagenic activity of the house-cleaning inosine triphosphate pyrophosphatase RdgB from Escherichia coli.
  2. RdgB homologs play a preemptive role in excluding endogenous and exogenous modified purine deoxyribonucleoside triphosphate (dTNPs) from incorporation into DNA.
    Title: Substrate specificity of RdgB protein, a deoxyribonucleoside triphosphate pyrophosphohydrolase.
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 ITP diphosphatase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables ITP diphosphatase activity IEA
Inferred from Electronic Annotation
more info
  
enables XTP diphosphatase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables XTP diphosphatase activity IEA
Inferred from Electronic Annotation
more info
  
enables dITP diphosphatase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables dITP diphosphatase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables magnesium ion binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleoside triphosphate diphosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nucleoside triphosphate diphosphatase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables nucleoside triphosphate diphosphatase activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
enables protein homodimerization activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables ribonucleoside triphosphate phosphatase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within nucleoside triphosphate catabolic process EXP
Inferred from Experiment
more info
 PubMed 
involved_in nucleoside triphosphate catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within nucleoside triphosphate catabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in nucleoside triphosphate catabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in nucleotide metabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in purine nucleoside triphosphate catabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in purine nucleoside triphosphate catabolic process IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
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
dITP/XTP pyrophosphatase
NP_417429.1

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
    3096681..3097274
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_417429.1 dITP/XTP pyrophosphatase [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_417429.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A376M2W1
    Conserved Domains (1) summary
    PRK00120
    Location:2 → 197
    PRK00120; dITP/XTP pyrophosphatase; Reviewed
Nucleotide Protein
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