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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
    Heading Accession and Version

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