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    dnaN beta sliding clamp [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 948218, updated on 3-Dec-2024

    Summary

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    Official Symbol
    dnaN
    Official Full Name
    beta sliding clamp
    Primary source
    ECOCYC:EG10242
    Locus tag
    b3701
    See related
    ASAP:ABE-0012098
    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
    ECK3693
    Summary
    The beta subunit of DNA polymerase III dimerizes to form the sliding clamp that links the core polymerase to DNA and allows processive DNA replication. [More information is available at EcoCyc: EG10242].
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    Genomic context

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    Sequence:
    NC_000913.3 (3881221..3882321, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene DNA gyrase subunit B Neighboring gene recombination mediator protein RecF Neighboring gene chromosomal replication initiator protein DnaA Neighboring gene protein YsdD

    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. Beta*, a UV-inducible shorter form of the beta subunit of DNA polymerase III of Escherichia coli. II. Overproduction, purification, and activity as a polymerase processivity clamp. Skaliter R, et al. J Biol Chem, 1996 Feb 2. PMID 8576212
    2. Clamping down on transposon targeting. Chandler M. Cell, 2009 Aug 21. PMID 19703389
    3. The dnaN gene codes for the beta subunit of DNA polymerase III holoenzyme of escherichia coli. Burgers PM, et al. Proc Natl Acad Sci U S A, 1981 Sep. PMID 6458041, Free PMC Article
    4. ATP activation of DNA polymerase III holoenzyme from Escherichia coli. II. Initiation complex: stoichiometry and reactivity. Burgers PM, et al. J Biol Chem, 1982 Oct 10. PMID 6749841
    5. Purification and characterization of the beta subunit of the DNA polymerase III holoenzyme of Escherichia coli. Johanson KO, et al. J Biol Chem, 1980 Nov 25. PMID 6776124

    See all (162) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Elevated Levels of the Escherichia coli nrdAB-Encoded Ribonucleotide Reductase Counteract the Toxicity Caused by an Increased Abundance of the beta Clamp.
      Title: Elevated Levels of the Escherichia coli nrdAB-Encoded Ribonucleotide Reductase Counteract the Toxicity Caused by an Increased Abundance of the β Clamp.
    2. The Mutant beta(E202K) Sliding Clamp Protein Impairs DNA Polymerase III Replication Activity.
      Title: The Mutant β(E202K) Sliding Clamp Protein Impairs DNA Polymerase III Replication Activity.
    3. In Bacillus subtilis, the interaction stimulates the endonuclease activity of MutL and it is critical for DNA mismatch repair. Conversely, disrupting the interaction between Escherichia coli MutL and the b-clamp only causes a mild mutator phenotype. Here, we determined the structures of the regulatory domains of E. coli and B. subtilis MutL bound to their respective b-clamps
      Title: Binding of the regulatory domain of MutL to the sliding β-clamp is species specific.
    4. Results demonstrate that the beta-clamp of the Escherichia coli replisome strongly inhibits nick translation on the DNA substrate. beta-clamp inhibits the strand displacement activity of Pol I by interfering with the interaction between the finger subdomain of Pol I and the downstream primer-template junction. beta-clamp stimulates the 5' exonuclease property of Pol I to cleave single nucleotides or shorter oligonucleo...
      Title: Escherichia coli β-clamp slows down DNA polymerase I dependent nick translation while accelerating ligation.
    5. structural and mutational analyses of the Hda-beta clamp complex indicate that the interaction of the beta clamp with Hda controls the ability of Hda to interact with DnaA.
      Title: Dynamic assembly of Hda and the sliding clamp in the regulation of replication licensing.
    6. The Escherichia coli beta clamp can simultaneously bind the replicative polymerase (Pol) III and the conserved Y-family Pol IV, enabling exchange of the two polymerases and rapid bypass of a Pol IV cognate lesion.
      Title: Polymerase exchange on single DNA molecules reveals processivity clamp control of translesion synthesis.
    7. A structural model of the alphaepsilontheta;:beta2 replicase complex reveals a compact, but still flexible, structure of the complex.
      Title: Proofreading exonuclease on a tether: the complex between the E. coli DNA polymerase III subunits α, epsilon, θ and β reveals a highly flexible arrangement of the proofreading domain.
    8. DNA polymerase III beta may stimulate the endonuclease activity of MutL through its direct interaction with the C-terminal domain of MutL.
      Title: The endonuclease domain of MutL interacts with the β sliding clamp.
    9. Escherichia coli cells with a point mutation in the dnaN gene causing the amino acid change Gly157 to Cys, were found to underinitiate replication and grow with a reduced origin and DNA concentration.
      Title: The G157C mutation in the Escherichia coli sliding clamp specifically affects initiation of replication.
    10. Study shows that the little finger domain of PolIV-beta interaction stabilizes the clamp-polymerase complex in vitro and is necessary for the access of PolIV to ongoing replication forks in vivo.
      Title: Distinct beta-clamp interactions govern the activities of the Y family PolIV DNA polymerase.
    Submit: New GeneRIF Correction See all GeneRIFs (17)

    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 3'-5' exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-directed DNA polymerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in DNA replication IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA strand elongation involved in DNA replication IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within DNA strand elongation involved in DNA replication IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in DNA-templated DNA replication NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within bacterial-type DNA replication IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within error-prone translesion synthesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of DNA-templated DNA replication initiation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of DNA-templated DNA replication initiation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of DNA polymerase III complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of DNA polymerase III complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of DNA polymerase III complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of Hda-beta clamp complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol HDA PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of replication inhibiting complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    part_of replisome NAS
    Non-traceable Author Statement
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    beta sliding clamp

    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
      3881221..3882321 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_418156.1 beta sliding clamp [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_418156.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A6C9Q8B9
      Conserved Domains (1) summary
      PRK05643
      Location:1 → 366
      PRK05643; DNA polymerase III subunit beta; Validated
    Nucleotide Protein
    Heading Accession and Version

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