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    nrdF ribonucleoside-diphosphate reductase 2 subunit beta [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 947149, updated on 17-Dec-2024

    Summary

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    Official Symbol
    nrdF
    Official Full Name
    ribonucleoside-diphosphate reductase 2 subunit beta
    Primary source
    ECOCYC:EG12381
    Locus tag
    b2676
    See related
    ASAP:ABE-0008808
    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
    ECK2670; ygaD
    Summary
    nrdF is a nonessential gene. [More information is available at EcoGene: EG12381]. Expression of the nrdHIEF operon is increased by hydroxyurea and oxidative stress . [More information is available at EcoCyc: EG12381].
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    Genomic context

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    Sequence:
    NC_000913.3 (2803502..2804461)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene glutaredoxin-like protein NrdH Neighboring gene dimanganese-tyrosyl radical cofactor maintenance flavodoxin NrdI Neighboring gene ribonucleoside-diphosphate reductase 2 subunit alpha Neighboring gene glycine betaine ABC transporter ATP binding subunit ProV Neighboring gene glycine betaine ABC transporter membrane subunit ProW Neighboring gene glycine betaine ABC transporter periplasmic binding protein ProX

    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. Cloning and sequencing of the genes from Salmonella typhimurium encoding a new bacterial ribonucleotide reductase. Jordan A, et al. J Bacteriol, 1994 Jun. PMID 8195103, Free PMC Article
    2. The alternative aerobic ribonucleotide reductase of Escherichia coli, NrdEF, is a manganese-dependent enzyme that enables cell replication during periods of iron starvation. Martin JE, et al. Mol Microbiol, 2011 Apr. PMID 21338418, Free PMC Article
    3. A second class I ribonucleotide reductase in Enterobacteriaceae: characterization of the Salmonella typhimurium enzyme. Jordan A, et al. Proc Natl Acad Sci U S A, 1994 Dec 20. PMID 7809142, Free PMC Article
    4. Structural basis for activation of class Ib ribonucleotide reductase. Boal AK, et al. Science, 2010 Sep 17. PMID 20688982, Free PMC Article
    5. An active dimanganese(III)-tyrosyl radical cofactor in Escherichia coli class Ib ribonucleotide reductase. Cotruvo JA Jr, et al. Biochemistry, 2010 Feb 16. PMID 20070127, Free PMC Article

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Thus NrdEF supports DNA replication when iron is unavailable to activate the housekeeping NrdAB enzyme.
      Title: The alternative aerobic ribonucleotide reductase of Escherichia coli, NrdEF, is a manganese-dependent enzyme that enables cell replication during periods of iron starvation.
    2. results strongly suggest that E. coli NrdF is an obligate manganese protein in vivo and that the Mn(III)(2)-Y(*) cofactor assembly pathway
      Title: Escherichia coli class Ib ribonucleotide reductase contains a dimanganese(III)-tyrosyl radical cofactor in vivo.
    3. crystal structure of Mn(II)2-NrdF and Fe(II)2-NrdF reveal different coordination environments; in structures of Mn(II)2-NrdF in complex with reduced and oxidized NrdI, a continuous channel connects NrdI flavin cofactor to the NrdF Mn(II)2 active site
      Title: Structural basis for activation of class Ib ribonucleotide reductase.
    4. Functional long-range proton-coupled electron transfer in ribonucleoside diphosphate reductase occurs via an optimized pathway of amino acids spanning >35 A across the alpha:beta interface.
      Title: Use of 3-aminotyrosine to examine the pathway dependence of radical propagation in Escherichia coli ribonucleotide reductase.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    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 manganese ion binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor IEA
    Inferred from Electronic Annotation
    more info
    		  
    contributes_to ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in 2'-deoxyribonucleotide biosynthetic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in deoxyribonucleotide biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within deoxyribonucleotide biosynthetic process IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in ribonucleoside diphosphate metabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of ribonucleoside-diphosphate reductase complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of ribonucleoside-diphosphate reductase complex IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    part_of ribonucleoside-diphosphate reductase complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    ribonucleoside-diphosphate reductase 2 subunit beta
    NP_417162.1

    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
      2803502..2804461
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_417162.1 ribonucleoside-diphosphate reductase 2 subunit beta [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_417162.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A8S7TJ10
      Conserved Domains (1) summary
      TIGR04171
      Location:6 → 319
      RNR_1b_NrdF; ribonucleoside-diphosphate reductase, class 1b, beta subunit
    Nucleotide Protein
    Heading Accession and Version

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