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    dnaB replicative DNA helicase [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 948555, updated on 3-Dec-2024

    Summary

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    Official Symbol
    dnaB
    Official Full Name
    replicative DNA helicase
    Primary source
    ECOCYC:EG10236
    Locus tag
    b4052
    See related
    ASAP:ABE-0013269
    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
    ECK4044; groP; grpA; grpD
    Summary
    The dnaB gene is essential. [More information is available at EcoGene: EG10236]. DnaB, the replicative DNA helicase, processively unwinds DNA at replication forks in advance of DNA polymerase. [More information is available at EcoCyc: EG10236].
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    Genomic context

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    Sequence:
    NC_000913.3 (4264314..4265729)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene phage shock protein G Neighboring gene ncRNA Neighboring gene putative quinone oxidoreductase 1 Neighboring gene alanine racemase 1 Neighboring gene tyrosine aminotransferase

    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 of the dnaB gene of Escherichia coli is inducible by replication-blocking DNA damage in a recA-independent manner. Kleinsteuber S, et al. Mol Gen Genet, 1995 Oct 25. PMID 7476872
    2. Flexibility of the rings: structural asymmetry in the DnaB hexameric helicase. Yang S, et al. J Mol Biol, 2002 Aug 30. PMID 12206765
    3. DnaB drives DNA branch migration and dislodges proteins while encircling two DNA strands. Kaplan DL, et al. Mol Cell, 2002 Sep. PMID 12408831
    4. Oligomeric structure of Escherichia coli primary replicative helicase DnaB protein. Bujalowski W, et al. J Biol Chem, 1994 Dec 16. PMID 7989299
    5. Analysis of the endA mutation of Escherichia coli K12 strains: JM103 behaves like endA+ wild-type strains. Wnendt S. Biotechniques, 1994 Aug. PMID 7980923

    See all (204) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Concerted actions of DnaA complexes with DNA-unwinding sequences within and flanking replication origin oriC promote DnaB helicase loading.
      Title: Concerted actions of DnaA complexes with DNA-unwinding sequences within and flanking replication origin oriC promote DnaB helicase loading.
    2. The molecular coupling between substrate recognition and ATP turnover in a AAA+ hexameric helicase loader.
      Title: The molecular coupling between substrate recognition and ATP turnover in a AAA+ hexameric helicase loader.
    3. DnaB helicase dynamics in bacterial DNA replication resolved by single-molecule studies.
      Title: DnaB helicase dynamics in bacterial DNA replication resolved by single-molecule studies.
    4. Data show how DnaC opens the DnaB ring and represses the helicase prior to DNA binding and how DnaC ATPase activity is reciprocally regulated by DnaB and DNA.
      Title: Physical Basis for the Loading of a Bacterial Replicative Helicase onto DNA.
    5. The authors show that five copies of bacteriophage lambda helicase loader (lambdaP) bind at Escherichia coli DnaB subunit interfaces and reconfigure the helicase into an open spiral conformation that is intermediate to previously observed closed ring and closed spiral forms; reconfiguration also produces openings large enough to admit single-stranded DNA into the inner chamber.
      Title: Mechanisms of opening and closing of the bacterial replicative helicase.
    6. we propose that DnaC controls the ability of DnaB to interact with primase by modifying the conformation of the N-terminal domain of DnaB
      Title: DnaC, the indispensable companion of DnaB helicase, controls the accessibility of DnaB helicase by primase.
    7. Thus, imbalances in levels of the replicative helicase and helicase loader can inhibit replication both via inhibition of DnaB6-DnaC6 complex formation with excess DnaB, as shown here, and promotion of formation of DnaB6-DnaC6 complexes with excess DnaC.
      Title: Overexpression of the Replicative Helicase in Escherichia coli Inhibits Replication Initiation and Replication Fork Reloading.
    8. Data demonstrate that DnaC opens DnaB by a mechanism akin to that of polymerase clamp loaders and indicate that bacterial replicative helicases, like their eukaryotic counterparts, possess autoregulatory elements that influence how hexameric motor domains are loaded onto and unwind DNA.
      Title: The bacterial DnaC helicase loader is a DnaB ring breaker.
    9. The authors show that the binding of DnaA on the NrdAB promoter can either activate or repress transcription as a function of its concentration and its nucleotide-bound state.
      Title: DnaA-ATP acts as a molecular switch to control levels of ribonucleotide reductase expression in Escherichia coli.
    10. HpDnaB differs greatly from E.coli DnaB despite both being gram negative bacteria
      Title: Three-dimensional structure of N-terminal domain of DnaB helicase and helicase-primase interactions in Helicobacter pylori.
    Submit: New GeneRIF Correction See all GeneRIFs (16)

    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 5'-3' DNA helicase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP-dependent H2AZ histone chaperone activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP-dependent H3-H4 histone complex chaperone activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA clamp loader activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA helicase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables chromatin extrusion motor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables cohesin loader activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables double-stranded DNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables forked DNA-dependent helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables four-way junction helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables helicase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables isomerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables single-stranded 3'-5' DNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA duplex unwinding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in DNA replication IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within DNA replication IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in DNA replication initiation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in DNA replication, synthesis of primer IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in DNA replication, synthesis of primer IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA replication, synthesis of primer NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in DNA unwinding involved in DNA replication IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within DNA unwinding involved in DNA replication IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in DNA unwinding involved in DNA replication NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in chromatin looping IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in replication fork processing NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within response to ionizing radiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of DNA helicase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of DnaB-DnaC complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    part_of DnaB-DnaC-DnaT-PriA-PriB complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of DnaB-DnaC-DnaT-PriA-PriC complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of DnaB-DnaC-Rep-PriC complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of DnaB-DnaG complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of primosome complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of primosome complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of replisome NAS
    Non-traceable Author Statement
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    replicative DNA helicase

    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
      4264314..4265729
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_418476.1 replicative DNA helicase [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_418476.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A5B9AM67, A0A792DQ47
      Conserved Domains (1) summary
      PRK08006
      Location:1 → 471
      PRK08006; replicative DNA helicase DnaB
    Nucleotide Protein
    Heading Accession and Version

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