Nigel J Savery

Summary

Affiliation: University of Bristol
Country: UK

Publications

  1. pmc Multipartite control of the DNA translocase, Mfd
    Abigail J Smith
    DNA Protein Interactions Unit, School of Biochemistry, University of Bristol, Bristol BS8 1TD, UK
    Nucleic Acids Res 40:10408-16. 2012
  2. pmc Controlling the motor activity of a transcription-repair coupling factor: autoinhibition and the role of RNA polymerase
    Abigail J Smith
    DNA Protein Interactions Unit, Department of Biochemistry, University of Bristol, Bristol, UK
    Nucleic Acids Res 35:1802-11. 2007
  3. pmc RNA polymerase mutants defective in the initiation of transcription-coupled DNA repair
    A J Smith
    Department of Biochemistry, School of Medical Sciences, University of Bristol, University Walk Bristol BS8 1TD, UK
    Nucleic Acids Res 33:755-64. 2005
  4. ncbi request reprint The molecular mechanism of transcription-coupled DNA repair
    Nigel J Savery
    DNA Protein Interactions Unit, Department of Biochemistry, University of Bristol, Bristol BS8 1TD, UK
    Trends Microbiol 15:326-33. 2007
  5. pmc The conserved C-terminus of the PcrA/UvrD helicase interacts directly with RNA polymerase
    Emma J Gwynn
    DNA Protein Interactions Unit, School of Biochemistry, University of Bristol, Bristol, United Kingdom
    PLoS ONE 8:e78141. 2013
  6. pmc The unstructured C-terminal extension of UvrD interacts with UvrB, but is dispensable for nucleotide excision repair
    Laura Manelyte
    DNA Protein Interactions Unit, Department of Biochemistry, University of Bristol, Bristol BS8 1TD, UK
    DNA Repair (Amst) 8:1300-10. 2009
  7. doi request reprint Effects of the bacterial transcription-repair coupling factor during transcription of DNA containing non-bulky lesions
    Abigail J Smith
    DNA Protein Interactions Unit, Department of Biochemistry, University of Bristol, Bristol, UK
    DNA Repair (Amst) 7:1670-9. 2008
  8. pmc Stalled transcription complexes promote DNA repair at a distance
    Nia M Haines
    DNA Protein Interactions Unit, School of Biochemistry, University of Bristol, Bristol BS8 1TD, United Kingdom
    Proc Natl Acad Sci U S A 111:4037-42. 2014
  9. ncbi request reprint Characterisation of the Escherichia coli mfd promoter
    Louise K Stanley
    Department of Biochemistry, University of Bristol, School of Medical Sciences, University Walk, BS8 1TD, Bristol, UK
    Arch Microbiol 179:381-5. 2003
  10. pmc Regulation and rate enhancement during transcription-coupled DNA repair
    Laura Manelyte
    DNA Protein Interactions Unit, School of Biochemistry, University of Bristol, Bristol BS8 1TD, UK
    Mol Cell 40:714-24. 2010

Collaborators

Detail Information

Publications18

  1. pmc Multipartite control of the DNA translocase, Mfd
    Abigail J Smith
    DNA Protein Interactions Unit, School of Biochemistry, University of Bristol, Bristol BS8 1TD, UK
    Nucleic Acids Res 40:10408-16. 2012
    ..Our results indicate that regulation of Mfd occurs through multiple nodes, and that activation of Mfd may be a multi-stage process...
  2. pmc Controlling the motor activity of a transcription-repair coupling factor: autoinhibition and the role of RNA polymerase
    Abigail J Smith
    DNA Protein Interactions Unit, Department of Biochemistry, University of Bristol, Bristol, UK
    Nucleic Acids Res 35:1802-11. 2007
    ....
  3. pmc RNA polymerase mutants defective in the initiation of transcription-coupled DNA repair
    A J Smith
    Department of Biochemistry, School of Medical Sciences, University of Bristol, University Walk Bristol BS8 1TD, UK
    Nucleic Acids Res 33:755-64. 2005
    ....
  4. ncbi request reprint The molecular mechanism of transcription-coupled DNA repair
    Nigel J Savery
    DNA Protein Interactions Unit, Department of Biochemistry, University of Bristol, Bristol BS8 1TD, UK
    Trends Microbiol 15:326-33. 2007
    ..Here I review the key features of this multifunctional protein and discuss how recent mechanistic and structural findings have advanced our understanding of transcription-coupled DNA repair in bacteria...
  5. pmc The conserved C-terminus of the PcrA/UvrD helicase interacts directly with RNA polymerase
    Emma J Gwynn
    DNA Protein Interactions Unit, School of Biochemistry, University of Bristol, Bristol, United Kingdom
    PLoS ONE 8:e78141. 2013
    ..A disordered but highly conserved C-terminal region of PcrA, which distinguishes PcrA/UvrD from otherwise related enzymes such as Rep, is both necessary and sufficient for interaction with RNA polymerase. ..
  6. pmc The unstructured C-terminal extension of UvrD interacts with UvrB, but is dispensable for nucleotide excision repair
    Laura Manelyte
    DNA Protein Interactions Unit, Department of Biochemistry, University of Bristol, Bristol BS8 1TD, UK
    DNA Repair (Amst) 8:1300-10. 2009
    ....
  7. doi request reprint Effects of the bacterial transcription-repair coupling factor during transcription of DNA containing non-bulky lesions
    Abigail J Smith
    DNA Protein Interactions Unit, Department of Biochemistry, University of Bristol, Bristol, UK
    DNA Repair (Amst) 7:1670-9. 2008
    ..Our findings suggest that 8-oxoguanine is unlikely to be directly targeted by the transcription-coupled repair pathway, and identify a potential role for Mfd in reducing the level of transcriptional mutagenesis caused by abasic sites...
  8. pmc Stalled transcription complexes promote DNA repair at a distance
    Nia M Haines
    DNA Protein Interactions Unit, School of Biochemistry, University of Bristol, Bristol BS8 1TD, United Kingdom
    Proc Natl Acad Sci U S A 111:4037-42. 2014
    ..The discovery that pause sites can promote the repair of nonstalling lesions suggests that TCR pathways may play a wider role in modulating mutation frequencies in different parts of the genome than has previously been suspected. ..
  9. ncbi request reprint Characterisation of the Escherichia coli mfd promoter
    Louise K Stanley
    Department of Biochemistry, University of Bristol, School of Medical Sciences, University Walk, BS8 1TD, Bristol, UK
    Arch Microbiol 179:381-5. 2003
    ..A canonical sigma(70)-dependent promoter, mfd P1, was responsible for the majority of mfd transcription, and a core region consisting of residues -42 to +5 was sufficient for full activity in rich and minimal media...
  10. pmc Regulation and rate enhancement during transcription-coupled DNA repair
    Laura Manelyte
    DNA Protein Interactions Unit, School of Biochemistry, University of Bristol, Bristol BS8 1TD, UK
    Mol Cell 40:714-24. 2010
    ....
  11. pmc Modelling emergence of oscillations in communicating bacteria: a structured approach from one to many cells
    Petros Mina
    Bristol Center for Complexity Sciences, University of Bristol, Bristol, UK
    J R Soc Interface 10:20120612. 2013
    ..We conclude that population effects in GRN design need to be taken into consideration and be part of the design process. This is important in planning intervention strategies or designing specific cell behaviours...
  12. doi request reprint The conflict between DNA replication and transcription
    Peter McGlynn
    School of Medical Sciences, Institute of Medical Sciences, University of Aberdeen, Foresterhill, Aberdeen, UK
    Mol Microbiol 85:12-20. 2012
    ....
  13. pmc BSim: an agent-based tool for modeling bacterial populations in systems and synthetic biology
    Thomas E Gorochowski
    Bristol Centre for Complexity Sciences, Department of Engineering Mathematics, University of Bristol, Bristol, United Kingdom
    PLoS ONE 7:e42790. 2012
    ..sf.net and distributed under the Open Source Initiative (OSI) recognized MIT license. Developer documentation and a wide range of example simulations are also available from the website. BSim requires Java version 1.6 or higher...
  14. pmc Determinants of the C-terminal domain of the Escherichia coli RNA polymerase alpha subunit important for transcription at class I cyclic AMP receptor protein-dependent promoters
    Nigel J Savery
    Department of Biochemistry, School of Medical Sciences, University of Bristol, Bristol, United Kingdom
    J Bacteriol 184:2273-80. 2002
    ..We also conclude that the relative contributions of individual residues within the 265 determinant depend on promoter sequence, and we discuss explanations for effects of substitutions in the 261 determinant...
  15. pmc A multi-functional synthetic gene network: a frequency multiplier, oscillator and switch
    Oliver Purcell
    Department of Engineering Mathematics, Bristol Centre for Complexity Sciences, University of Bristol, Bristol, United Kingdom
    PLoS ONE 6:e16140. 2011
    ..This network represents a significant theoretical addition that extends the capabilities of synthetic gene networks...
  16. pmc DNA cleavage and methylation specificity of the single polypeptide restriction-modification enzyme LlaGI
    Rachel M Smith
    DNA Protein Interactions Unit, Department of Biochemistry, School of Medical Sciences, University of Bristol, Bristol, BS8 1TD, UK
    Nucleic Acids Res 37:7206-18. 2009
    ....
  17. pmc Transcription coupled nucleotide excision repair in Escherichia coli can be affected by changing the arginine at position 529 of the beta subunit of RNA polymerase
    Ann K Ganesan
    Department of Biological Sciences, Stanford University, Stanford, CA 94303 5020, USA
    DNA Repair (Amst) 6:1434-40. 2007
    ..Our results suggest that this interaction may be necessary but not sufficient to facilitate TCR...
  18. ncbi request reprint Structural basis for bacterial transcription-coupled DNA repair
    Alexandra M Deaconescu
    The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA
    Cell 124:507-20. 2006
    ..These data, along with a structural model for the interaction of TRCF with the transcription elongation complex, provide mechanistic insights into TRCF function...