dnaQ

Summary

Gene Symbol: dnaQ
Description: DNA polymerase III epsilon subunit
Alias: ECK0215, JW0205, mutD
Species: Escherichia coli str. K-12 substr. MG1655

Top Publications

  1. ncbi Elucidation of the epsilon-theta subunit interface of Escherichia coli DNA polymerase III by NMR spectroscopy
    Eugene F Derose
    Laboratory of Structural Biology, National Institute of Environmental Health Sciences, Box 12233, Research Triangle Park, North Carolina 27709, USA
    Biochemistry 42:3635-44. 2003
  2. pmc Proofreading and secondary structure processing determine the orientation dependence of CAG x CTG trinucleotide repeat instability in Escherichia coli
    Rabaab Zahra
    Institute of Cell Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3JZ, United Kingdom
    Genetics 176:27-41. 2007
  3. pmc Structure of the Escherichia coli DNA polymerase III epsilon-HOT proofreading complex
    Thomas W Kirby
    Laboratory of Structural Biology, National Institute of Environmental Health Sciences NIH, 111 TW Alexander Drive, Research Triangle Park, NC 27709, USA
    J Biol Chem 281:38466-71. 2006
  4. ncbi Structural basis for proofreading during replication of the Escherichia coli chromosome
    Samir Hamdan
    Research School of Chemistry, Australian National University, Canberra, ACT, Australia
    Structure 10:535-46. 2002
  5. ncbi Hydrolysis of the 5'-p-nitrophenyl ester of TMP by the proofreading exonuclease (epsilon) subunit of Escherichia coli DNA polymerase III
    Samir Hamdan
    Research School of Chemistry, Australian National University, Canberra, ACT 0200, Australia
    Biochemistry 41:5266-75. 2002
  6. ncbi Silencing of the gene coding for the epsilon subunit of DNA polymerase III slows down the growth rate of Escherichia coli populations
    Alessandra Stefan
    Department of Industrial Chemistry, University of Bologna, Viale Risorgimento 4, 40136 Bologna, Italy
    FEBS Lett 546:295-9. 2003
  7. pmc The theta subunit of Escherichia coli DNA polymerase III: a role in stabilizing the epsilon proofreading subunit
    Sharon A Taft-Benz
    Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, 111 T W Alexander Drive, Research Triangle Park, NC 27709, USA
    J Bacteriol 186:2774-80. 2004
  8. ncbi Preliminary X-ray crystallographic and NMR studies on the exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III
    S Hamdan
    Research School of Chemistry, Australian National University, Canberra, ACT, 0200, Australia
    J Struct Biol 131:164-9. 2000
  9. ncbi Two functional domains of the epsilon subunit of DNA polymerase III
    F W Perrino
    Wake Forest University School of Medicine, Department of Biochemistry, Winston Salem, North Carolina 27157, USA
    Biochemistry 38:16001-9. 1999
  10. ncbi Lanthanide labeling offers fast NMR approach to 3D structure determinations of protein-protein complexes
    Guido Pintacuda
    Research School of Chemistry, Australian National University, Canberra ACT 0200, Australia
    J Am Chem Soc 128:3696-702. 2006

Research Grants

  1. NUCLEASES IN DNA REPAIR AND RECOMBINATION
    SUSAN LOVETT; Fiscal Year: 2006
  2. Bacterial cell cycle control
    SUSAN THOMAS LOVETT; Fiscal Year: 2010

Scientific Experts

  • SUSAN LOVETT
  • Nobutaka Nakashima
  • Robert Dorazi
  • M A Keniry
  • FRED PERRINO
  • G Andres Cisneros
  • Kiyoshi Ozawa
  • Nicholas E Dixon
  • Alessandra Stefan
  • Slobodan Jergic
  • Anna K Chikova
  • Gottfried Otting
  • Alejandro Hochkoeppler
  • Roel M Schaaper
  • Thomas Huber
  • R M Schaaper
  • Anetta Nowosielska
  • Alejandro Montón Silva
  • Samir Hamdan
  • Andrew Robinson
  • Nicholas P Horan
  • Fabrizio Dal Piaz
  • Eugene F Derose
  • Daniela Bressanin
  • Jennifer Reineke Pohlhaus
  • Catherine Suski
  • Christophe Schmitz
  • Jennifer L Beck
  • Mike O'Donnell
  • S A Taft-Benz
  • Rabaab Zahra
  • Ah Young Park
  • Peter McInerney
  • P T Pham
  • Richard T Pomerantz
  • Luca Reggiani
  • Guido Pintacuda
  • Thomas W Kirby
  • Stefano Cianchetta
  • Yo Oishi
  • C S McHenry
  • Robert E London
  • I J Fijalkowska
  • Scott Harvey
  • Samina Iqbal
  • Sharon A Taft-Benz
  • Elzbieta Grzesiuk
  • Duane A Lehtinen
  • Alessandro Ceccarelli
  • Alessandro Perrone
  • Fabio Lapenta
  • Angela Borden
  • Susan E Brown
  • Paul D Carr
  • David L Ollis
  • Samir M Hamdan
  • Nan Li
  • Xuefeng Pan
  • Claire E Mason
  • Aaron J Oakley
  • Mohamed M Elshenawy
  • C J Saveson
  • Joris M H Goudsmits
  • Flynn R Hill
  • Yao Wang
  • Karin V Loscha
  • Zhi Qiang Xu
  • Antoine M van Oijen
  • Thitima Urathamakul
  • Moeava Tehei
  • Hiromasa Yagi
  • M D Sutton
  • A Quinones
  • S Hamdan
  • M O'DONNELL
  • Kenneth N Kreuzer
  • M R Motamedi
  • Xun Cheng Su
  • A S Morag
  • David T Long
  • Kenneth J Marians
  • Mitchell J Stanton-Cook
  • Erin O'Reilly
  • Martin Tabler
  • Francine Katz
  • Jill Sales
  • Aaron Johnson
  • John K Blackwood
  • M W Olson
  • David R F Leach

Detail Information

Publications91

  1. ncbi Elucidation of the epsilon-theta subunit interface of Escherichia coli DNA polymerase III by NMR spectroscopy
    Eugene F Derose
    Laboratory of Structural Biology, National Institute of Environmental Health Sciences, Box 12233, Research Triangle Park, North Carolina 27709, USA
    Biochemistry 42:3635-44. 2003
    ..These chemical shift mapping results also suggest an explanation for how the unstable dnaQ49 mutator phenotype of epsilon may be stabilized by binding theta...
  2. pmc Proofreading and secondary structure processing determine the orientation dependence of CAG x CTG trinucleotide repeat instability in Escherichia coli
    Rabaab Zahra
    Institute of Cell Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3JZ, United Kingdom
    Genetics 176:27-41. 2007
    ..of CAG x CTG trinucleotide repeat deletion is determined by the proofreading subunit of DNA polymerase III (DnaQ) in the presence of the hairpin nuclease SbcCD (Rad50/Mre11)...
  3. pmc Structure of the Escherichia coli DNA polymerase III epsilon-HOT proofreading complex
    Thomas W Kirby
    Laboratory of Structural Biology, National Institute of Environmental Health Sciences NIH, 111 TW Alexander Drive, Research Triangle Park, NC 27709, USA
    J Biol Chem 281:38466-71. 2006
    ..This structure provides insight into how HOT and, by implication, may stabilize the epsilon subunit, thus promoting efficient proofreading during chromosomal replication...
  4. ncbi Structural basis for proofreading during replication of the Escherichia coli chromosome
    Samir Hamdan
    Research School of Chemistry, Australian National University, Canberra, ACT, Australia
    Structure 10:535-46. 2002
    ..The protein structure is built around a core five-stranded beta sheet that is a common feature of members of the DnaQ superfamily...
  5. ncbi Hydrolysis of the 5'-p-nitrophenyl ester of TMP by the proofreading exonuclease (epsilon) subunit of Escherichia coli DNA polymerase III
    Samir Hamdan
    Research School of Chemistry, Australian National University, Canberra, ACT 0200, Australia
    Biochemistry 41:5266-75. 2002
    ....
  6. ncbi Silencing of the gene coding for the epsilon subunit of DNA polymerase III slows down the growth rate of Escherichia coli populations
    Alessandra Stefan
    Department of Industrial Chemistry, University of Bologna, Viale Risorgimento 4, 40136 Bologna, Italy
    FEBS Lett 546:295-9. 2003
    ..by the multimeric enzyme DNA polymerase III; the relevance, in vivo, of the epsilon subunit (encoded by dnaQ) for processivity and fidelity of DNA polymerase III has been evaluated...
  7. pmc The theta subunit of Escherichia coli DNA polymerase III: a role in stabilizing the epsilon proofreading subunit
    Sharon A Taft-Benz
    Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, 111 T W Alexander Drive, Research Triangle Park, NC 27709, USA
    J Bacteriol 186:2774-80. 2004
    ..mismatch-repair-defective mutL backgrounds, (ii) strong DeltaholE mutator effects in certain proofreading-impaired dnaQ strains, and (iii) yeast two- and three-hybrid experiments demonstrating enhancement of alpha-epsilon interactions ..
  8. ncbi Preliminary X-ray crystallographic and NMR studies on the exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III
    S Hamdan
    Research School of Chemistry, Australian National University, Canberra, ACT, 0200, Australia
    J Struct Biol 131:164-9. 2000
    ..2 mm x 0.2 mm x 1.0 mm, grow over about 2 weeks at 4 degrees C, and diffract X-rays to 2.0 A. The space group was determined to be P4(n)2(1)2 (n = 0, 1, 2, 3), with unit cell dimensions a = 60.8 A, c = 111.4 A...
  9. ncbi Two functional domains of the epsilon subunit of DNA polymerase III
    F W Perrino
    Wake Forest University School of Medicine, Department of Biochemistry, Winston Salem, North Carolina 27157, USA
    Biochemistry 38:16001-9. 1999
    ..These data support the concept that epsilon contains a catalytic domain located within the N-terminal region and an alpha-association domain located within the C-terminal region of the protein...
  10. ncbi Lanthanide labeling offers fast NMR approach to 3D structure determinations of protein-protein complexes
    Guido Pintacuda
    Research School of Chemistry, Australian National University, Canberra ACT 0200, Australia
    J Am Chem Soc 128:3696-702. 2006
    ..Degeneracies in the mutual orientation of the protein structures were resolved by the use of two different lanthanide ions, Dy3+ and Er3+...
  11. pmc Structure of the theta subunit of Escherichia coli DNA polymerase III in complex with the epsilon subunit
    Max A Keniry
    Research School of Chemistry, Australian National University, Canberra, ACT 0200, Australia
    J Bacteriol 188:4464-73. 2006
    ..The pseudocontact shifts indicated that the helices of theta are located about 15 A or farther from the lanthanide ion in the active site of epsilon186, in agreement with the extensive biochemical data for the theta-epsilon system...
  12. ncbi Efficient silencing of the gene coding for the epsilon subunit of DNA polymerase III in Escherichia coli is triggered by antisense RNAs featuring stability in vivo
    Alessandra Stefan
    Consorzio per lo sviluppo dei Sistemi a Grande Interfase, Firenze, Italy
    FEMS Microbiol Lett 270:277-83. 2007
    The Escherichia coli gene dnaQ coding for the epsilon subunit of DNA polymerase III was suppressed in vivo via antisense RNAs...
  13. ncbi Characterization of a triple DNA polymerase replisome
    Peter McInerney
    Laboratory of DNA Replication, Howard Hughes Medical Institute, The Rockefeller University, New York, NY 10021, USA
    Mol Cell 27:527-38. 2007
    ..We propose that two polymerases can function on the lagging strand and that the third DNA polymerase can act as a reserve enzyme to overcome certain types of obstacles to the replication fork...
  14. ncbi DNA polymerase III of Escherichia coli. Purification and identification of subunits
    C S McHenry
    J Biol Chem 254:1748-53. 1979
    ..Our preparation has both the 3' leads to 5' and 5' leads to 3' exonuclease activities previously assigned to DNA polymerase III (Livingston, D., and Richardson, C. (1975) J. Biol. Chem. 250, 470-478)...
  15. pmc Identification of the epsilon-subunit of Escherichia coli DNA polymerase III holoenzyme as the dnaQ gene product: a fidelity subunit for DNA replication
    R Scheuermann
    Proc Natl Acad Sci U S A 80:7085-9. 1983
    ..coli occur in a single gene, dnaQ. To define further the role of the dnaQ gene, we have used two-dimensional gel electrophoresis to compare the ..
  16. ncbi Kinetic mechanism of the 3'-->5' proofreading exonuclease of DNA polymerase III. Analysis by steady state and pre-steady state methods
    H Miller
    Department of Biochemistry, Wake Forest University Medical Center, Winston Salem, North Carolina 27157, USA
    Biochemistry 35:12919-25. 1996
    ..The kinetics for exonucleolytic degradation of single-stranded, paired, and mispaired oligonucleotides support the model that the rate-limiting step in exonucleolytic proofreading of DNA by epsilon subunit is the DNA-melting step...
  17. ncbi Processive replication is contingent on the exonuclease subunit of DNA polymerase III holoenzyme
    P S Studwell
    Microbiology Department, Hearst Microbiology Research Center, Cornell University Medical College, New York, New York 10021
    J Biol Chem 265:1171-8. 1990
    ..In light of these results the significance of the polymerase and exonuclease activities residing in two separate polypeptides is discussed...
  18. ncbi Mechanism of the sliding beta-clamp of DNA polymerase III holoenzyme
    P T Stukenberg
    Howard Hughes Medical Institute, Hearst Microbiology Department, Cornell University Medical College, New York, New York 10021
    J Biol Chem 266:11328-34. 1991
    ..Hence, the high processivity of the holoenzyme is rooted in a "sliding clamp" of beta on DNA that tethers the polymerase to the primed template. Implications for transcription and translation are discussed...
  19. pmc A direct proofreader-clamp interaction stabilizes the Pol III replicase in the polymerization mode
    Slobodan Jergic
    School of Chemistry, University of Wollongong, Wollongong, New South Wales, Australia
    EMBO J 32:1322-33. 2013
    ....
  20. ncbi In vivo assembly of overproduced DNA polymerase III. Overproduction, purification, and characterization of the alpha, alpha-epsilon, and alpha-epsilon-theta subunits
    D R Kim
    Department of Biochemistry, Biophysics and Genetics, University of Colorado Health Sciences Center, Denver, Colorado 80262, USA
    J Biol Chem 271:20681-9. 1996
    ..and in vivo assembly of DNA polymerase III core, artificial operons containing the three structural genes, dnaE, dnaQ, and holE, were placed in an expression plasmid...
  21. pmc Mutational analysis of the 3'-->5' proofreading exonuclease of Escherichia coli DNA polymerase III
    S A Taft-Benz
    Laboratory of Molecular Genetics, National Institute of Environmental Health Science, PO Box 12233, Research Triangle Park, NC 27709, USA
    Nucleic Acids Res 26:4005-11. 1998
    ..epsilon performs these joint structural and catalytic functions, we have investigated a set of 20 newly isolated dnaQ mutator mutants...
  22. pmc The C-terminal domain of dnaQ contains the polymerase binding site
    S A Taft-Benz
    Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, Research Triangle Park, North Carolina 27709, USA
    J Bacteriol 181:2963-5. 1999
    The Escherichia coli dnaQ gene encodes the 3'-->5' exonucleolytic proofreading (epsilon) subunit of DNA polymerase III (Pol III)...
  23. pmc Dysfunctional proofreading in the Escherichia coli DNA polymerase III core
    Duane A Lehtinen
    Wake Forest University Health Sciences, Department of Biochemistry, Winston Salem, NC 27157, USA
    Biochem J 384:337-48. 2004
    ..A novel mutagenesis strategy was used to identify 23 dnaQ alleles that exhibit a mutator phenotype in vivo...
  24. pmc The bacteriophage P1 hot gene product can substitute for the Escherichia coli DNA polymerase III {theta} subunit
    Anna K Chikova
    Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, P O Box 12233, Research Triangle Park, NC 27709, USA
    J Bacteriol 187:5528-36. 2005
    ..The ability of hot to substitute for holE was also observed with other, although not all, dnaQ mutator alleles tested...
  25. pmc The proofreading exonuclease subunit epsilon of Escherichia coli DNA polymerase III is tethered to the polymerase subunit alpha via a flexible linker
    Kiyoshi Ozawa
    Research School of Chemistry, Australian National University, Canberra ACT 0200, Australia
    Nucleic Acids Res 36:5074-82. 2008
    ..This distinguishes the alpha : epsilon complex from other proofreading polymerases, which have a more rigid multidomain structure...
  26. pmc umuDC-dnaQ Interaction and its implications for cell cycle regulation and SOS mutagenesis in Escherichia coli
    M D Sutton
    Biology Department, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    J Bacteriol 183:1085-9. 2001
    ..Our results suggest that this suppression is attributable to specific interactions between UmuD or UmuD' and the C-terminal domain of epsilon...
  27. pmc Reversible phase variation in the phnE gene, which is required for phosphonate metabolism in Escherichia coli K-12
    Samina Iqbal
    Microbiology Division, School of Animal and Microbial Sciences, University of Reading, Reading RG6 6AJ, United Kingdom
    J Bacteriol 186:6118-23. 2004
    ..All K-12 strains, obtained from collections, appear in the "off" form even when bearing mutations in mutS, mutD, or dnaQ which are known to enhance slip strand events between repetitive sequences...
  28. pmc Double-strand-break repair recombination in Escherichia coli: physical evidence for a DNA replication mechanism in vivo
    M R Motamedi
    Department of Biological Sciences, University of Alberta, Edmonton, Alberta T6G 2H7 Canada
    Genes Dev 13:2889-903. 1999
    ..coli; the other half occurs by breakage and reunion, which we show requires resolvases, and is replication-independent. The data also indicate that accumulation of recombination intermediates promotes replication dramatically...
  29. ncbi Escherichia coli proteome chips for detecting protein-protein interactions
    Yo Oishi
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    Proteomics 6:6433-6. 2006
  30. ncbi Alteration in levels of unsaturated fatty acids in mutants of Escherichia coli defective in DNA replication
    E Suzuki
    Laboratory for Pharmacokinetics, Research and Development Division, Hoechst Marion Roussel, Ltd, Kawagoe, Japan
    Biol Pharm Bull 21:657-61. 1998
    ..These results suggest that the inhibition of DNA replication causes a lower level of unsaturation of fatty acids in Escherichia coli cells...
  31. doi Numbat: an interactive software tool for fitting Deltachi-tensors to molecular coordinates using pseudocontact shifts
    Christophe Schmitz
    School of Molecular and Microbial Sciences, University of Queensland, Brisbane, QLD 4072, Australia
    J Biomol NMR 41:179-89. 2008
    ..Use of the program for Linux and Windows operating systems is illustrated by building a model of the complex between the E. coli DNA polymerase III subunits epsilon186 and theta using PCS...
  32. pmc Enhanced deletion formation by aberrant DNA replication in Escherichia coli
    C J Saveson
    Department of Biology, Brandeis University, Waltham, Massachusetts 02254 9110, USA
    Genetics 146:457-70. 1997
    ..Especially large increases were observed in strains mutant in dnaQ the epsilon editing subunit of Pol III, and dnaB, the replication fork helicase...
  33. pmc Conditional gene silencing of multiple genes with antisense RNAs and generation of a mutator strain of Escherichia coli
    Nobutaka Nakashima
    Proteolysis and Protein Turnover Research Group, Research Institute of Genome Based Biofactory, National Institute of Advanced Industrial Science and Technology, Sapporo 062 8517, Japan
    Nucleic Acids Res 37:e103. 2009
    ..Furthermore, when antisense RNAs were targeted to the mutator genes mutS, mutD (dnaQ) and ndk, which are involved in DNA replication or DNA mismatch repair, spontaneous mutation frequencies increased ..
  34. doi Simultaneous ternary extension of DNA catalyzed by a trimeric replicase assembled in vivo
    Alejandro Montón Silva
    Department of Pharmacy and Biotechnology, University of Bologna, Viale Risorgimento 4, 40136 Bologna, Italy
    Biochem Biophys Res Commun 462:14-20. 2015
    ..Our observations indicate that trimeric DNA replicases reduce the gap between leading and lagging strand synthesis...
  35. ncbi The ssb-113 allele suppresses the dnaQ49 mutator and alters DNA supercoiling in Escherichia coli
    A Quinones
    Institut fur Genetik, Martin Luther Universitat, Halle, Germany
    Mol Microbiol 25:237-46. 1997
    Mutations in the dnaQ gene, which encodes the proofreading epsilon-subunit of the DNA polymerase III holoenzyme, lead to a mutator phenotype caused by enhanced error rates during DNA replication...
  36. ncbi Effect of enhanced synthesis of the epsilon subunit of DNA polymerase III on spontaneous and UV-induced mutagenesis of the Escherichia coli glyU gene
    Z Ciesla
    Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw
    Mol Gen Genet 221:251-5. 1990
    ..UV mutagenesis of the glyU gene in Escherichia coli trpA461 (GAG) strains carrying the pIP11 plasmid, in which the dnaQ gene encoding the 3'-5' exonuclease subunit (epsilon) of DNA polymerase III is fused to the tac(trp-lac) promoter...
  37. ncbi Mechanism of replication of ultraviolet-irradiated single-stranded DNA by DNA polymerase III holoenzyme of Escherichia coli. Implications for SOS mutagenesis
    Z Livneh
    J Biol Chem 261:9526-33. 1986
    ..Inhibition of the 3'----5' proofreading exonucleolytic activity of the polymerase by dGMP or by a mutD mutation did not increase bypass of pyrimidine photodimers, and neither did purified RecA protein influence the ..
  38. ncbi Expression of the Escherichia coli dnaQ (mutD) gene is inducible
    A Quinones
    Wissenschaftsbereich Genetik, Martin Luther Universitat, Halle, Saale, German Democratic Republic
    Mol Gen Genet 211:106-12. 1988
    ..fusion to the galK gene and comparative S1 analysis we investigated the in vivo regulation of transcription of the dnaQ gene which encodes the epsilon-subunit of the DNA polymerase III holoenzyme carrying the 3'----5' exonucleolytic ..
  39. pmc 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
    Kiyoshi Ozawa
    School of Chemistry, University of Wollongong, Northfields Avenue, Wollongong, NSW 2522, Australia
    Nucleic Acids Res 41:5354-67. 2013
    ..Structural models of the αεθ:β2 replicase complex with primer-template DNA combine all available structural data...
  40. ncbi Dynamics of DNA polymerase III holoenzyme of Escherichia coli in replication of a multiprimed template
    M E O'Donnell
    J Biol Chem 260:12875-83. 1985
    ..Based on these findings, schemes can be considered for holoenzyme action at the replication fork of a duplex chromosome...
  41. ncbi The Escherichia coli galK2 papillation assay: its specificity and application to seven newly isolated mutator strains
    A R Oller
    Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, Research Triangle Park, NC 27709
    Mutat Res 292:175-85. 1993
    The Escherichia coli dnaE and dnaQ genes encode, respectively, the alpha (polymerase) and epsilon (proofreading) subunits of DNA polymerase III...
  42. ncbi Transcriptional organization of the convergent overlapping dnaQ-rnh genes of Escherichia coli
    T Nomura
    J Biol Chem 260:7122-5. 1985
    The transcriptional organization was determined for the DNA polymerase III epsilon subunit (dnaQ) and the ribonuclease H (rnh) genes, which are closely spaced and organized in a face-to-face system (Maki, H., Horiuchi, T...
  43. ncbi Effect of deletion of SOS-induced polymerases, pol II, IV, and V, on spontaneous mutagenesis in Escherichia coli mutD5
    Anetta Nowosielska
    Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
    Environ Mol Mutagen 43:226-34. 2004
    The E. coli dnaQ gene encodes the epsilon subunit of DNA polymerase III (pol III) responsible for the proofreading activity of this polymerase...
  44. ncbi Dynamics of termination during in vitro replication of ultraviolet-irradiated DNA with DNA polymerase III holoenzyme of Escherichia coli
    H Shwartz
    J Biol Chem 262:10518-23. 1987
    ..We suggest that the inability of the polymerase to bypass photodimers during termination is due to the formation of defective initiation-like complexes with reduced stability at the blocked termini...
  45. ncbi The beta subunit modulates bypass and termination at UV lesions during in vitro replication with DNA polymerase III holoenzyme of Escherichia coli
    O Shavitt
    Department of Biochemistry, Weizmann Institute of Science, Rehovot, Israel
    J Biol Chem 264:11275-81. 1989
    ..Moreover, it predicts that bypass synthesis under SOS conditions might be associated with an altered form of the beta subunit...
  46. pmc Induction of dnaN and dnaQ gene expression in Escherichia coli by alkylation damage to DNA
    A Quinones
    Wissenschaftsbereich Genetik, Martin Luther Universitat, Halle, Saale, GDR
    EMBO J 8:587-93. 1989
    The dnaN and dnaQ genes encode the beta-subunit and the epsilon-subunit of the DNA polymerase III holoenzyme...
  47. pmc Multiple pathways for repair of hydrogen peroxide-induced DNA damage in Escherichia coli
    M E Hagensee
    Department of Cell Biology, Baylor College of Medicine, Houston, Texas 77030
    J Bacteriol 171:991-5. 1989
    ..One of these pathways would utilize exonuclease III, DNA polymerase III, and DNA polymerase I, while the other would be DNA polymerase I dependent. The RecA protein seems to have little or no direct function in either repair pathway...
  48. ncbi Expression of the dnaN and dnaQ genes of Escherichia coli is inducible by mitomycin C
    M Kaasch
    Wissenschaftsbereich Genetik, Martin Luther Universitat, Halle Saale, German Democratic Republic
    Mol Gen Genet 219:187-92. 1989
    The dnaN and dnaQ genes encode the beta subunit and the epsilon subunit of the DNA polymerase III holoenzyme. Using translational fusions to lacZ we found that DNA damage caused by mitomycin C induces expression of the dnaA and dnaQ genes...
  49. ncbi Can tRNAs act as antisense RNA? The case of mutA and dnaQ
    Robert Dorazi
    1 rue des Acacias, Jarny 54800, France
    J Theor Biol 225:383-8. 2003
    ..tRNAs (including mutA which encodes for a glycine missense suppressor tRNA) are complementary to the 5' end of dnaQ mRNA...
  50. ncbi Replisome mechanics: insights into a twin DNA polymerase machine
    Richard T Pomerantz
    Rockefeller University, Howard Hughes Medical Institute, 1230 York Avenue, New York, NY 10021, USA
    Trends Microbiol 15:156-64. 2007
    ..These studies demonstrate close similarities between the bacterial and eukaryotic replication machineries...
  51. ncbi Polymerase switching in DNA replication
    Susan T Lovett
    Department of Biology and Rosenstiel Basic Medical Sciences Research Institute, MS029, Brandeis University, Waltham, MA 02454 9110, USA
    Mol Cell 27:523-6. 2007
    ..New evidence suggests that three DNA polymerases can be accommodated into the replisome and that polymerases and repair factors are dynamically recruited and engaged without dismantling of the replisome...
  52. ncbi Regulation of the dnaQ gene of Escherichia coli in mutants expressing the SOS regulon constitutively
    A Quinones
    Wissenschaftsbereich Genetik der Martin Luther Universität, Halle, DDR
    J Basic Microbiol 30:353-62. 1990
    ..By promotor fusion to galK, gene fusion to lacZ and Sl analysis the in vivo regulation of dnaQ coding the proofreading subunit of DNA polymerase III holoenzyme was analyzed under conditions of induced or ..
  53. pmc The epsilon subunit of DNA polymerase III Is involved in the nalidixic acid-induced SOS response in Escherichia coli
    Jennifer Reineke Pohlhaus
    Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA
    J Bacteriol 190:5239-47. 2008
    ..From a collection of SOS partially constitutive mutants with disruptions of 47 different genes, we found that dnaQ insertion mutants are specifically deficient in the SOS response to nalidixic acid...
  54. pmc Resolution of converging replication forks by RecQ and topoisomerase III
    Catherine Suski
    Molecular Biology Program, Memorial Sloan Kettering Cancer Center, 1275 York Avenue, New York, NY 10021, USA
    Mol Cell 30:779-89. 2008
    ..This resolution reaction is specific for the RecQ-topoisomerase III pair and is mediated by interaction of both of these enzymes with the single-stranded DNA-binding protein SSB...
  55. ncbi Specificity of Escherichia coli mutD and mutL mutator strains
    T H Wu
    Department of Pharmacology, University of Massachusetts Medical School, Worcester 01655
    Gene 87:1-5. 1990
    The products of the mutD and mutL genes of Escherichia coli are involved in proofreading by DNA polymerase III and DNA adenine MTase (Dam)-dependent mismatch repair, respectively...
  56. pmc Reaction mechanism of the epsilon subunit of E. coli DNA polymerase III: insights into active site metal coordination and catalytically significant residues
    G Andres Cisneros
    Laboratory of Structural Biology, National Institute of Environmental Health Sciences, Research Triangle Park, North Carolina 27709, USA
    J Am Chem Soc 131:1550-6. 2009
    ..Some of these residues were found to be structurally conserved on human TREX1, the exonuclease domains from E. coli DNA-Pol I, and the DNA polymerase of bacteriophage RB69...
  57. ncbi Molecular mechanisms of replicational fidelity in Escherichia coli
    H Maki
    Department of Biochemistry, Faculty of Medicine, Kyushu University, Fukuoka, Japan
    Basic Life Sci 52:299-308. 1990
    ..the alpha subunit, encoded by the dnaE gene, has a polymerase activity, while the epsilon subunit, encoded by the dnaQ gene, is a proofreader with a 3'-5' exonuclease activity...
  58. ncbi Replication of E. coli duplex DNA in vitro. The separation of the DNA containing fractions of a lysate from the soluble enzymes and their complementation properties
    V Nüsslein
    Mol Gen Genet 145:183-90. 1976
    ..Other factors, that are essential for replicative DNA synthesis, including the dnaG gene product, are washed out of the DNA containing preparations and the system is reconstituted by readdition of the soluble proteins...
  59. pmc Structure and expression of the dnaQ mutator and the RNase H genes of Escherichia coli: overlap of the promoter regions
    H Maki
    Proc Natl Acad Sci U S A 80:7137-41. 1983
    ..coli chromosome was analyzed by Tn3 transposon insertion and deletion mapping to locate a mutator gene, dnaQ (mutD), and the rnh gene that codes for RNase H...
  60. ncbi Assembly of a chromosomal replication machine: two DNA polymerases, a clamp loader, and sliding clamps in one holoenzyme particle. III. Interface between two polymerases and the clamp loader
    R Onrust
    Microbiology Department, Cornell University Medical College, New York, New York 10021, USA
    J Biol Chem 270:13366-77. 1995
    ..The single copy nature of the delta, delta', chi, and psi subunits confers a structural asymmetry with respect to the two polymerases, presumably for the different functions of replicating the leading and lagging strands...
  61. ncbi In vitro UV mutagenesis associated with nucleotide excision-repair gaps in Escherichia coli
    O Cohen-Fix
    Department of Biochemistry, Weizmann Institute of Science, Rehovot, Israel
    J Biol Chem 269:4953-8. 1994
    ..Thus, the processivity subunit of the holoenzyme is not required for type II UV mutagenesis, in agreement with a mechanism involving filling-in of short single-stranded DNA gaps...
  62. pmc Mutants in the Exo I motif of Escherichia coli dnaQ: defective proofreading and inviability due to error catastrophe
    I J Fijalkowska
    Laboratory of Molecualr Genetics, NationalInstitute of Enviromental Health Sciences, Research Triangle Park, NC 27709, USA
    Proc Natl Acad Sci U S A 93:2856-61. 1996
    The Escherichia coli dnaQ gene encodes the proofreading 3' exonuclease (epsilon subunit) of DNA polymerase III holoenzyme and is a critical determinant of chromosomal replication fidelity...
  63. pmc Reconstitution of repair-gap UV mutagenesis with purified proteins from Escherichia coli: a role for DNA polymerases III and II
    G Tomer
    Department of Biochemistry, Weizmann Institute of Science, Rehovot, Israel
    Proc Natl Acad Sci U S A 93:1376-80. 1996
    ..These observations suggest that repair-gap UV mutagenesis is performed by DNA polymerase III, and to a lesser extent by DNA polymerase II, by filling-in of a rare class of excision gaps that contain UV lesions...
  64. pmc Mutator strains of Escherichia coli, mutD and dnaQ, with defective exonucleolytic editing by DNA polymerase III holoenzyme
    H Echols
    Proc Natl Acad Sci U S A 80:2189-92. 1983
    The closely linked mutD and dnaQ mutations confer a vastly increased mutation rate on Escherichia coli and thus might define a gene with a central role in the fidelity of DNA replication...
  65. pmc Genetic requirements and mutational specificity of the Escherichia coli SOS mutator activity
    I J Fijalkowska
    Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, Research Triangle Park, North Carolina 27709, USA
    J Bacteriol 179:7435-45. 1997
    ..of the mutator effect in various dnaE strains, including dnaE antimutators, as well as in proofreading-deficient dnaQ (mutD) strains suggests that in recA730 strains, two types of replication errors occur in parallel: (i) normal ..
  66. pmc In vivo protein interactions within the Escherichia coli DNA polymerase III core
    P Jonczyk
    Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
    J Bacteriol 180:1563-6. 1998
    ..physiological role of the interactions between the DnaE (alpha subunit [possessing DNA polymerase activity]) and DnaQ (epsilon subunit [possessing 3'-->5' exonucleolytic proofreading activity]) proteins...
  67. ncbi The interaction of DNA polymerase III and the product of the Escherichia coli mutator gene, mutD
    R DiFrancesco
    J Biol Chem 259:5567-73. 1984
    ..The decrease in the 3'-single strand exonuclease and turnover indicate a defect in the editing function of the mutD strain, which is at least in part responsible for the high spontaneous mutation rate in mutD...
  68. pmc Escherichia coli DNA polymerase III can replicate efficiently past a T-T cis-syn cyclobutane dimer if DNA polymerase V and the 3' to 5' exonuclease proofreading function encoded by dnaQ are inactivated
    Angela Borden
    Section on DNA Replication, Repair, and Mutagenesis, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892 2725, USA
    J Bacteriol 184:2674-81. 2002
    ..This mutant polymerase does not replicate past the much more distorted T-T (6-4) photoadduct, however, suggesting that it may only replicate past lesions, like the T-T dimer, that form base pairs normally...
  69. ncbi The base substitution and frameshift fidelity of Escherichia coli DNA polymerase III holoenzyme in vitro
    P T Pham
    Laboratory of Molecular Genetics, NIEHS, National Institutes of Health, Research Triangle Park, North Carolina 27709, USA
    J Biol Chem 273:23575-84. 1998
    ....
  70. ncbi Mismatch extension by Escherichia coli DNA polymerase III holoenzyme
    P T Pham
    Laboratory of Molecular Genetics, NIEHS, National Institutes of Health, Research Triangle Park, North Carolina 27709, USA
    J Biol Chem 274:3705-10. 1999
    ..The preference of polymerase III HE for misalignment extension over direct mismatch extension provides a basis for explaining the in vitro (-1)-frameshift specificity of polymerase III HE...
  71. pmc Identification of the dnaQ gene product and location of the structural gene for RNase H of Escherichia coli by cloning of the genes
    T Horiuchi
    Proc Natl Acad Sci U S A 78:3770-4. 1981
    ..The dnaQ+ plasmids consist of a full-length pBR322 DNA and a 1.5-kilobase DNA fragment derived from the E. coli chromosome...
  72. ncbi Expansion of DNA repeats in Escherichia coli: effects of recombination and replication functions
    A S Morag
    Department of Biology and Rosenstiel Basic Medical Sciences Research Center, Brandeis University, Waltham, MA, 02454 9110, USA
    J Mol Biol 289:21-7. 1999
    ..Mutations that impair DNA polymerase III (DnaE, DnaQ subunits) or the replication fork helicase, DnaB, stimulated both RecA-dependent and RecA-independent expansion ..
  73. pmc Selection of a mutant of Escherichia coli which has high mutation rates
    R B Helling
    J Bacteriol 96:975-80. 1968
    ..This mutation (mut-2) and the Treffers' mutation (mutT1) mapped at approximately the same position to the right of leu. Specificity studies showed that the two mutations differ in rates of mutation produced...
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    K Takano
    Mol Gen Genet 205:9-13. 1986
    ..The dnaQ49 mutator has a single base substitution in the dnaQ gene, thus causing one amino acid change, 96Val (GTG)----Gly (GGG), in the DnaQ protein (epsilon subunit of DNA ..
  75. ncbi DNA polymerase III holoenzyme of Escherichia coli. II. A novel complex including the gamma subunit essential for processive synthesis
    S Maki
    Department of Biochemistry, Stanford University School of Medicine, California 94305
    J Biol Chem 263:6555-60. 1988
    ....
  76. ncbi DNA Polymerase III holoenzyme of Escherichia coli. IV. The holoenzyme is an asymmetric dimer with twin active sites
    H Maki
    Department of Biochemistry, Stanford University School of Medicine, California 94305
    J Biol Chem 263:6570-8. 1988
    ....
  77. ncbi DNA sequence and coding properties of mutD(dnaQ) a dominant Escherichia coli mutator gene
    E C Cox
    J Mol Biol 190:113-7. 1986
    The mutD(dnaQ) gene in Escherichia coli codes for the epsilon subunit of the DNA polymerase pol III holoenzyme. Previous work has shown that this gene lies adjacent to the gene coding for RNase H (rnh)...
  78. pmc Mutator and antimutator effects of the bacteriophage P1 hot gene product
    Anna K Chikova
    Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, P O Box 12233, Research Triangle Park, NC 27709, USA
    J Bacteriol 188:5831-8. 2006
    ..for the Escherichia coli DNA polymerase III theta subunit, as evidenced by its stabilizing effect on certain dnaQ mutants that carry an unstable polymerase III epsilon proofreading subunit (antimutator effect)...
  79. pmc Levels of epsilon, an essential replication subunit of Escherichia coli DNA polymerase III, are controlled by heat shock proteins
    P L Foster
    Department of Environmental Health, Boston University School of Public Health, Massachusetts 02118
    J Bacteriol 174:7509-16. 1992
    In Escherichia coli, epsilon, the proofreading subunit of DNA polymerase III, is encoded by dnaQ. A random search for mutants that affect the expression of dnaQ revealed that mutations in the genes encoding the heat shock proteins (HSPs) ..
  80. doi Proteolysis of the proofreading subunit controls the assembly of Escherichia coli DNA polymerase III catalytic core
    Daniela Bressanin
    Department of Industrial Chemistry, University of Bologna, Viale Risorgimento 4, 40136 Bologna, Italy
    Biochim Biophys Acta 1794:1606-15. 2009
    ..Accordingly, the factors catalysing (ClpP, GroL) or preventing (DnaK) this proteolysis exert a crucial checkpoint of the assembly of Escherichia coli DNA polymerase III core...
  81. ncbi DNA polymerase III holoenzyme of Escherichia coli. III. Distinctive processive polymerases reconstituted from purified subunits
    S Maki
    Department of Biochemistry, Stanford University School of Medicine, California 94305
    J Biol Chem 263:6561-9. 1988
    ....
  82. ncbi DNA polymerase III holoenzyme: structure and function of a chromosomal replicating machine
    Z Kelman
    Microbiology Department, Cornell University Medical College, New York, NY 10021, USA
    Annu Rev Biochem 64:171-200. 1995
    ..This review summarizes our present knowledge about the function of the 10 subunits of this replicating machine and how they coordinate their actions for smooth duplication of chromosomes...
  83. ncbi A dominant (mutD5) and a recessive (dnaQ49) mutator of Escherichia coli
    M Maruyama
    J Mol Biol 167:757-71. 1983
    ..Insertion of the gamma delta sequence into the mutD gene of the plasmid resulted in disappearance of the 25,000 Mr protein...
  84. ncbi Site-specific pausing of deoxyribonucleic acid synthesis catalyzed by four forms of Escherichia coli DNA polymerase III
    R J LaDuca
    Biochemistry 22:5177-88. 1983
    ..Additionally, a nucleotide composition specificity of pause sites has been observed...
  85. ncbi The cycling of Escherichia coli DNA polymerase III holoenzyme in replication
    P M Burgers
    J Biol Chem 258:7669-75. 1983
    ....
  86. ncbi Spontaneous mutagenesis in exponentially growing and stationary-phase, umuDC-proficient and -deficient, Escherichia coli dnaQ49
    Anetta Nowosielska
    Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
    Acta Biochim Pol 51:683-92. 2004
    ..Our results indicate that the level of Pol III desintegration, dependent on the temperature of incubation, is more critical for spontaneous mutagenesis in stationary-phase dnaQ49 cells than the presence or absence of Pol V...
  87. ncbi Escherichia coli DNA polymerase III holoenzyme subunits alpha, beta, and gamma directly contact the primer-template
    J A Reems
    Department of Biochemistry, University of Colorado Health Sciences Center, Denver 80262
    J Biol Chem 270:5606-13. 1995
    ..These data indicate that assembly of holoenzyme onto a primer-template can occur in distinct stages and results in a structural rearrangement during initiation complex formation...

Research Grants3

  1. NUCLEASES IN DNA REPAIR AND RECOMBINATION
    SUSAN LOVETT; Fiscal Year: 2006
    ..We will extend genetic analysis of radC to determine what role it may play in repair and recombination. ..
  2. Bacterial cell cycle control
    SUSAN THOMAS LOVETT; Fiscal Year: 2010
    ..LAY DESCRIPTION: We will study a protein present in all bacteria that appears to control their growth. This will provide important missing information about how bacteria divide and may provide a target for antibiotics. ..