DOROTHY ERIE

Summary

Affiliation: University of North Carolina
Country: USA

Publications

  1. pmc Direct visualization of asymmetric adenine-nucleotide-induced conformational changes in MutL alpha
    Elizabeth J Sacho
    Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
    Mol Cell 29:112-21. 2008
  2. pmc Determination of protein-DNA binding constants and specificities from statistical analyses of single molecules: MutS-DNA interactions
    Yong Yang
    Department of Chemistry, University of North Carolina at Chapel Hill Chapel Hill, NC 27599 3290, USA
    Nucleic Acids Res 33:4322-34. 2005
  3. pmc Four-color single-molecule fluorescence with noncovalent dye labeling to monitor dynamic multimolecular complexes
    VANESSA DEROCCO
    Department of Chemistry, The University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
    Biotechniques 49:807-16. 2010
  4. doi request reprint Forks, pincers, and triggers: the tools for nucleotide incorporation and translocation in multi-subunit RNA polymerases
    Dorothy A Erie
    Department of Chemistry, University of North Carolina, Chapel Hill, NC 27599, United States
    Curr Opin Struct Biol 19:708-14. 2009
  5. ncbi request reprint The many conformational states of RNA polymerase elongation complexes and their roles in the regulation of transcription
    Dorothy A Erie
    Department of Chemistry, University of North Carolina, Chapel Hill, NC 27599 3290, USA
    Biochim Biophys Acta 1577:224-39. 2002
  6. ncbi request reprint Downstream DNA sequence effects on transcription elongation. Allosteric binding of nucleoside triphosphates facilitates translocation via a ratchet motion
    Shannon F Holmes
    Department of Chemistry, The University of North Carolina, Chapel Hill, North Carolina 27599, USA
    J Biol Chem 278:35597-608. 2003
  7. ncbi request reprint Kinetics of multisubunit RNA polymerases: experimental methods and data analysis
    Shannon F Holmes
    Department of Chemistry, CB 3290, Venable and Kenan Laboratories, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599 3290, USA
    Methods Enzymol 371:71-81. 2003
  8. ncbi request reprint Kinetic investigation of Escherichia coli RNA polymerase mutants that influence nucleotide discrimination and transcription fidelity
    Shannon F Holmes
    Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    J Biol Chem 281:18677-83. 2006
  9. pmc DNA bending and unbending by MutS govern mismatch recognition and specificity
    Hong Wang
    Department of Chemistry and Curriculum in Applied and Materials Sciences, University of North Carolina, Chapel Hill, NC 27599, USA
    Proc Natl Acad Sci U S A 100:14822-7. 2003
  10. pmc Single-molecule FRET TACKLE reveals highly dynamic mismatched DNA-MutS complexes
    Lauryn E Sass
    Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    Biochemistry 49:3174-90. 2010

Research Grants

Collaborators

  • Jacob Piehler
  • T A Kunkel
  • F A Kadyrov
  • Jeffrey Roberts
  • MANJU HINGORANI
  • Thomas J Santangelo
  • Isaac Wong
  • MICHAEL D BRENOWITZ
  • Seth Darst
  • Yong Yang
  • Shannon F Holmes
  • Elizabeth J Sacho
  • Ingrid Tessmer
  • Lauryn E Sass
  • Hong Wang
  • Peggy Hsieh
  • VANESSA DEROCCO
  • Keith Weninger
  • Brian P Hogan
  • Sukhdev S Brar
  • Oi Kwan Wong
  • Linda Chelico
  • Peter A Lemaire
  • Valerie Lamour
  • Chunwei Du
  • Kogan K Bao
  • Cherie Lanyi
  • Trevor Anderson
  • Deborah L Croteau
  • Chungwei Du
  • Jie Zhai
  • Martin Guthold
  • Jeff Gelles
  • Myron F Goodman
  • Marilyn Diaz
  • Paul Modrich
  • Candice K Cunningham
  • James L Cole
  • Ranyelle Craig
  • J Estelle Foster
  • Jamie K Miller
  • Anna Marie Skalka
  • Susan D Lee
  • James T Drummond
  • Erik D Larson
  • Yonatan Fridman
  • Mark J Schofield
  • Eric Alani
  • Thomas Hartsch

Detail Information

Publications21

  1. pmc Direct visualization of asymmetric adenine-nucleotide-induced conformational changes in MutL alpha
    Elizabeth J Sacho
    Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
    Mol Cell 29:112-21. 2008
    ..These data reveal an ATPase cycle in which sequential nucleotide binding, hydrolysis, and release modulate the conformational states of MutL alpha...
  2. pmc Determination of protein-DNA binding constants and specificities from statistical analyses of single molecules: MutS-DNA interactions
    Yong Yang
    Department of Chemistry, University of North Carolina at Chapel Hill Chapel Hill, NC 27599 3290, USA
    Nucleic Acids Res 33:4322-34. 2005
    ..In conclusion, from a single set of AFM experiments, it is possible to determine the binding affinity, specificity and stoichiometry, as well as the conformational properties of the protein-DNA complexes...
  3. pmc Four-color single-molecule fluorescence with noncovalent dye labeling to monitor dynamic multimolecular complexes
    VANESSA DEROCCO
    Department of Chemistry, The University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
    Biotechniques 49:807-16. 2010
    ....
  4. doi request reprint Forks, pincers, and triggers: the tools for nucleotide incorporation and translocation in multi-subunit RNA polymerases
    Dorothy A Erie
    Department of Chemistry, University of North Carolina, Chapel Hill, NC 27599, United States
    Curr Opin Struct Biol 19:708-14. 2009
    ....
  5. ncbi request reprint The many conformational states of RNA polymerase elongation complexes and their roles in the regulation of transcription
    Dorothy A Erie
    Department of Chemistry, University of North Carolina, Chapel Hill, NC 27599 3290, USA
    Biochim Biophys Acta 1577:224-39. 2002
    ..The role of each of the conformational states in elongation is then discussed in detail. Finally, an integrated mechanism of elongation is presented, bringing together the panoply of experiments...
  6. ncbi request reprint Downstream DNA sequence effects on transcription elongation. Allosteric binding of nucleoside triphosphates facilitates translocation via a ratchet motion
    Shannon F Holmes
    Department of Chemistry, The University of North Carolina, Chapel Hill, North Carolina 27599, USA
    J Biol Chem 278:35597-608. 2003
    ..This model provides an alternative mechanism for pausing as well as a structural explanation not only for our kinetic data but also for data from elongation studies on yeast RNAP II...
  7. ncbi request reprint Kinetics of multisubunit RNA polymerases: experimental methods and data analysis
    Shannon F Holmes
    Department of Chemistry, CB 3290, Venable and Kenan Laboratories, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599 3290, USA
    Methods Enzymol 371:71-81. 2003
  8. ncbi request reprint Kinetic investigation of Escherichia coli RNA polymerase mutants that influence nucleotide discrimination and transcription fidelity
    Shannon F Holmes
    Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    J Biol Chem 281:18677-83. 2006
    ..We suggest a mechanism of nucleotide discrimination that is governed both by rotation of the NTP through this pore and subsequent rearrangement or closure of RNAP to align the NTP in the A site...
  9. pmc DNA bending and unbending by MutS govern mismatch recognition and specificity
    Hong Wang
    Department of Chemistry and Curriculum in Applied and Materials Sciences, University of North Carolina, Chapel Hill, NC 27599, USA
    Proc Natl Acad Sci U S A 100:14822-7. 2003
    ..Our results provide a structural explanation for the long-standing question of how MutS achieves mismatch repair specificity...
  10. pmc Single-molecule FRET TACKLE reveals highly dynamic mismatched DNA-MutS complexes
    Lauryn E Sass
    Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    Biochemistry 49:3174-90. 2010
    ..Finally, in addition to revealing these important biological implications of MutS-DNA interactions, this FRET TACKLE method will enable the analysis of the complex dynamics of other biological systems...
  11. ncbi request reprint Transcript cleavage by Thermus thermophilus RNA polymerase. Effects of GreA and anti-GreA factors
    Brian P Hogan
    Department of Chemistry, CB 3290, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599 3290, USA
    J Biol Chem 277:967-75. 2002
    ..This protein, Gfh1, functions as an anti-GreA factor in vitro by reducing intrinsic cleavage and competing with GreA for a binding site on the polymerase...
  12. ncbi request reprint Quantitative characterization of biomolecular assemblies and interactions using atomic force microscopy
    Yong Yang
    Department of Chemistry, University of North Carolina at Chapel Hill at Chapel Hill, Chapel Hill, NC 27599, USA
    Methods 29:175-87. 2003
    ..These developments make AFM a powerful tool for investigating the biomolecular assemblies and interactions that govern gene regulation...
  13. pmc Mechanism of MutS searching for DNA mismatches and signaling repair
    Ingrid Tessmer
    Department of Chemistry and Curriculum in Applied Sciences and Engineering, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    J Biol Chem 283:36646-54. 2008
    ..These results provide a structural explanation for the mechanism by which MutS searches for and recognizes mismatches and for the observed phenotypes of mutants with substitutions in the Phe-Xaa-Glu motif...
  14. pmc Catching RNA polymerase in the act of binding: intermediates in transcription illuminated by synchrotron footprinting
    Michael Brenowitz
    Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, USA
    Proc Natl Acad Sci U S A 102:4659-60. 2005
  15. ncbi request reprint DNA mismatch repair
    Thomas A Kunkel
    Laboratory of Molecular Genetics and Laboratory of Structural Biology, National Institute of Environmental Health Sciences, Research Triangle Park, North Carolina 27709, USA
    Annu Rev Biochem 74:681-710. 2005
    ..Emphasis is on structure-function studies of MMR proteins, on how mismatches are recognized, on the process by which the newly replicated strand is identified, and on excision of the replication error...
  16. ncbi request reprint Functional oligomeric state of avian sarcoma virus integrase
    Kogan K Bao
    Department of Biochemistry and Biophysics, Oregon State University, Oregon 97331, USA
    J Biol Chem 278:1323-7. 2003
    ..These results suggest that tetramer formation may be a requisite step during catalysis with ramifications for antiviral design strategies targeting the structurally homologous human immunodeficiency virus, type 1 (HIV-1) integrase...
  17. pmc Interconvertible lac repressor-DNA loops revealed by single-molecule experiments
    Oi Kwan Wong
    Department of Biochemistry, Brandeis University, Waltham, Massachusetts, USA
    PLoS Biol 6:e232. 2008
    ..The ability to switch between different loop structures may help to explain how robust transcription regulation is maintained even though the mechanical work required to form a loop may change substantially with metabolic conditions...
  18. pmc A model for oligomeric regulation of APOBEC3G cytosine deaminase-dependent restriction of HIV
    Linda Chelico
    Department of Biological Sciences and Chemistry, University of Southern California, Los Angeles, California 90089 2910, USA
    J Biol Chem 283:13780-91. 2008
    ..We suggest that diverse A3G oligomerization modes contribute to the human immunodeficiency virus, type 1, proviral DNA mutational bias...
  19. pmc Activation-induced deaminase, AID, is catalytically active as a monomer on single-stranded DNA
    Sukhdev S Brar
    Laboratory of Molecular Genetics, D3 01, National Institute of Environmental Health Sciences National Institutes of Health, 111 TW Alexander Drive, Research Triangle Park, NC 27709, USA
    DNA Repair (Amst) 7:77-87. 2008
    ....
  20. pmc Unactivated PKR exists in an open conformation capable of binding nucleotides
    Peter A Lemaire
    Department of Molecular and Cell Biology, University of Connecticut, Storrs, Connecticut 06269 3125, USA
    Biochemistry 45:9074-84. 2006
    ..The resolution of the individual domains in the images supports a model in which unactivated PKR exists in an open conformation where the kinase domain is accessible and capable of binding substrate...
  21. ncbi request reprint Crystal structure of Thermus aquaticus Gfh1, a Gre-factor paralog that inhibits rather than stimulates transcript cleavage
    Valerie Lamour
    The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA
    J Mol Biol 356:179-88. 2006
    ..The latter two characteristics suggest that Gfh1 chelates a magnesium ion in the RNA polymerase active site (like GreA) but in a catalytically inactive configuration...

Research Grants15

  1. Structure Function Studies of DNA Mismatch Repair
    Dorothy A Erie; Fiscal Year: 2010
    ....
  2. Structure Function Studies of DNA Mismatch Repair
    DOROTHY ERIE; Fiscal Year: 2009
    ....
  3. Mechanistic studies of DNA repair and damage response
    DOROTHY ERIE; Fiscal Year: 2009
    ..abstract_text> ..
  4. Kinetic Studies of Transcription Elongation
    DOROTHY ERIE; Fiscal Year: 2005
    ..Accordingly, we will use this information to begin to understand, at the amino acid level, the role of NTP binding and conformational transitions in the regulation of elongation. ..
  5. 2002 Gordon Research Conference on Biopolymers
    DOROTHY ERIE; Fiscal Year: 2002
    ..The program encompasses some of the most exciting research in the field of nucleic acid and protein biophysics and promises to generate lively discussions both in and outside of the sessions. ..
  6. Structure Function Studies of DNA Mismatch Repair
    DOROTHY ERIE; Fiscal Year: 2009
    ....
  7. BIOPHYSICAL AND SCANNING FORCE MICROSCOPY STUDIES
    DOROTHY ERIE; Fiscal Year: 2001
    ..3) How do polymorphisms affect the above properties? ..
  8. Mechanistic studies of DNA repair and damage response
    Dorothy A Erie; Fiscal Year: 2010
    ..abstract_text> ..