The clamp-loader-helicase interaction in Bacillus. Atomic force microscopy reveals the structural organisation of the DnaB-tau complex in Bacillus.

The clamp-loader-helicase interaction is an important feature of the replisome. Although significant biochemical and structural work has been carried out on the clamp-loader-clamp-DNA polymerase alpha interactions in Escherichia coli, the clamp-loader-helicase interaction is poorly understood by comparison. The tau subunit of the clamp-loader mediates the interaction with DnaB. We have recently characterised this interaction in the Bacillus system and established a tau(5)-DnaB(6) stoichiometry. Here, we have obtained atomic force microscopy images of the tau-DnaB complex that reveal the first structural insight into its architecture. We show that despite the reported absence of the shorter gamma version in Bacillus, tau has a domain organisation similar to its E.coli counterpart and possesses an equivalent C-terminal domain that interacts with DnaB. The interaction interface of DnaB is also localised in its C-terminal domain. The combined data contribute towards our understanding of the bacterial replisome.

[1]  C S McHenry,et al.  tau binds and organizes Escherichia coli replication proteins through distinct domains. Domain IV, located within the unique C terminus of tau, binds the replication fork, helicase, DnaB. , 2001, The Journal of biological chemistry.

[2]  A. Flower,et al.  The gamma subunit of DNA polymerase III holoenzyme of Escherichia coli is produced by ribosomal frameshifting. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[3]  L. Guarente,et al.  High-efficiency transformation of yeast by electroporation. , 1991, Methods in enzymology.

[4]  J. Walker,et al.  Programmed ribosomal frameshifting generates the Escherichia coli DNA polymerase III gamma subunit from within the tau subunit reading frame. , 1990, Nucleic acids research.

[5]  J. Kuriyan,et al.  Crystal Structure of the Processivity Clamp Loader Gamma (γ) Complex of E. coli DNA Polymerase III , 2001, Cell.

[6]  M C Davies,et al.  The discrimination of IgM and IgG type antibodies and Fab' and F(ab)2 antibody fragments on an industrial substrate using scanning force microscopy. , 1996, Ultramicroscopy.

[7]  H Yoshikawa,et al.  ATP-dependent structural change of the eukaryotic clamp-loader protein, replication factor C. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[8]  C. McHenry,et al.  The DnaX-binding Subunits δ′ and ψ Are Bound to γ and Not τ in the DNA Polymerase III Holoenzyme* , 2000, The Journal of Biological Chemistry.

[9]  D. Wigley,et al.  Site-directed mutagenesis reveals roles for conserved amino acid residues in the hexameric DNA helicase DnaB from Bacillus stearothermophilus. , 2002, Nucleic acids research.

[10]  E. Egelman,et al.  Flexibility of the rings: structural asymmetry in the DnaB hexameric helicase. , 2002, Journal of molecular biology.

[11]  J M Berger,et al.  Crystal structure of the N-terminal domain of the DnaB hexameric helicase. , 1999, Structure.

[12]  C. McHenry,et al.  The χψ Subunits of DNA Polymerase III Holoenzyme Bind to Single-stranded DNA-binding Protein (SSB) and Facilitate Replication of an SSB-coated Template* , 1998, The Journal of Biological Chemistry.

[13]  Z. Kelman,et al.  Devoted to the lagging strand—the χ subunit of DNA polymerase III holoenzyme contacts SSB to promote processive elongation and sliding clamp assembly , 1998, The EMBO journal.

[14]  J. Kuriyan,et al.  Thermus thermophilis dnaX Homolog Encoding γ- and τ-like Proteins of the Chromosomal Replicase* , 1997, The Journal of Biological Chemistry.

[15]  Quantifying surface topography and scanning probe image reconstruction , 1999 .

[16]  Z. Tsuchihashi,et al.  Translational frameshifting in the Escherichia coli dnaX gene in vitro. , 1991, Nucleic acids research.

[17]  M. O’Donnell,et al.  The DNA Replication Machine of a Gram-positive Organism* , 2000, The Journal of Biological Chemistry.

[18]  J. Kuriyan,et al.  Mechanism of Processivity Clamp Opening by the Delta Subunit Wrench of the Clamp Loader Complex of E. coli DNA Polymerase III , 2001, Cell.

[19]  Z. Kelman,et al.  Trading Places on DNA—A Three-Point Switch Underlies Primer Handoff from Primase to the Replicative DNA Polymerase , 1999, Cell.

[20]  J Weigelt,et al.  NMR structure of the N-terminal domain of E. coli DnaB helicase: implications for structure rearrangements in the helicase hexamer. , 1999, Structure.

[21]  M. Smith,et al.  Clamp-loader-helicase interaction in Bacillus. Leucine 381 is critical for pentamerization and helicase binding of the Bacillus tau protein. , 2003, Biochemistry.

[22]  D. Müller,et al.  From images to interactions: high-resolution phase imaging in tapping-mode atomic force microscopy. , 2001, Biophysical journal.

[23]  D. Bastia,et al.  Direct physical interaction between DnaG primase and DnaB helicase of Escherichia coli is necessary for optimal synthesis of primer RNA. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[24]  A. Pritchard,et al.  A novel assembly mechanism for the DNA polymerase III holoenzyme DnaX complex: association of δδ′ with DnaX4 forms DnaX3δδ′ , 2000 .

[25]  A. Pritchard,et al.  τ Binds and Organizes Escherichia coli Replication Proteins through Distinct Domains , 2001, The Journal of Biological Chemistry.

[26]  Martyn C. Davies,et al.  Toward true surface recovery : Studying distortions in scanning probe microscopy image data , 1996 .

[27]  S. Ehrlich,et al.  Two Essential DNA Polymerases at the Bacterial Replication Fork , 2001, Science.

[28]  Y. Ishino,et al.  Atomic structure of the clamp loader small subunit from Pyrococcus furiosus. , 2001, Molecular cell.

[29]  J M Carazo,et al.  Three-dimensional reconstructions from cryoelectron microscopy images reveal an intimate complex between helicase DnaB and its loading partner DnaC. , 1998, Structure.

[30]  C S McHenry,et al.  tau binds and organizes Escherichia coli replication through distinct domains. Partial proteolysis of terminally tagged tau to determine candidate domains and to assign domain V as the alpha binding domain. , 2001, The Journal of biological chemistry.

[31]  Anna Wieczorek,et al.  A Three-domain Structure for the δ Subunit of the DNA Polymerase III Holoenzyme δ Domain III Binds δ′ and Assembles into the DnaX Complex* , 2002, The Journal of Biological Chemistry.

[32]  P. Farabaugh Programmed translational frameshifting. , 1996, Annual review of genetics.

[33]  L. Bird,et al.  Mapping protein-protein interactions within a stable complex of DNA primase and DnaB helicase from Bacillus stearothermophilus. , 2000, Biochemistry.

[34]  Edward H. Egelman,et al.  The hexameric E. coli DnaB helicase can exist in different Quaternary states. , 1996, Journal of molecular biology.

[35]  J. F. Atkins,et al.  Nonlinearity in genetic decoding: homologous DNA replicase genes use alternatives of transcriptional slippage or translational frameshifting. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[36]  A. Sentenac,et al.  Interaction between Yeast RNA Polymerase III and Transcription Factor TFIIIC via ABC10α and τ131 Subunits* , 1999, The Journal of Biological Chemistry.

[37]  J. Alonso,et al.  Bacillus subtilis tau subunit of DNA polymerase III interacts with bacteriophage SPP1 replicative DNA helicase G40P. , 2002, Nucleic acids research.

[38]  B. Stillman,et al.  Opening of the Clamp An Intimate View of an ATP-Driven Biological Machine , 2001, Cell.

[39]  C. McHenry,et al.  Coupling of a Replicative Polymerase and Helicase: A τ–DnaB Interaction Mediates Rapid Replication Fork Movement , 1996, Cell.

[40]  Mike O'Donnell,et al.  Mechanism of the E. coli tau processivity switch during lagging-strand synthesis. , 2003, Molecular cell.