Catherine M Joyce

Summary

Affiliation: Yale University
Country: USA

Publications

  1. pmc Prechemistry nucleotide selection checkpoints in the reaction pathway of DNA polymerase I and roles of glu710 and tyr766
    Oya Bermek
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, United States
    Biochemistry 52:6258-74. 2013
  2. pmc Techniques used to study the DNA polymerase reaction pathway
    Catherine M Joyce
    Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, P O Box 208114, New Haven, CT 06520 8114, USA
    Biochim Biophys Acta 1804:1032-40. 2010
  3. ncbi Fingers-closing and other rapid conformational changes in DNA polymerase I (Klenow fragment) and their role in nucleotide selectivity
    Catherine M Joyce
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA
    Biochemistry 47:6103-16. 2008
  4. ncbi DNA polymerase fidelity: kinetics, structure, and checkpoints
    Catherine M Joyce
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    Biochemistry 43:14317-24. 2004
  5. pmc T4 replication: what does "processivity" really mean?
    Catherine M Joyce
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA
    Proc Natl Acad Sci U S A 101:8255-6. 2004
  6. ncbi Conformational changes during normal and error-prone incorporation of nucleotides by a Y-family DNA polymerase detected by 2-aminopurine fluorescence
    Angela M DeLucia
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    Biochemistry 46:10790-803. 2007
  7. ncbi The properties of steric gate mutants reveal different constraints within the active sites of Y-family and A-family DNA polymerases
    Angela M DeLucia
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA
    J Biol Chem 281:27286-91. 2006
  8. pmc An error-prone family Y DNA polymerase (DinB homolog from Sulfolobus solfataricus) uses a 'steric gate' residue for discrimination against ribonucleotides
    Angela M DeLucia
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520 8114, USA
    Nucleic Acids Res 31:4129-37. 2003
  9. ncbi Use of 2-aminopurine fluorescence to examine conformational changes during nucleotide incorporation by DNA polymerase I (Klenow fragment)
    Vandana Purohit
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA
    Biochemistry 42:10200-11. 2003
  10. ncbi Interaction of DNA polymerase I (Klenow fragment) with the single-stranded template beyond the site of synthesis
    Robert M Turner
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    Biochemistry 42:2373-85. 2003

Collaborators

  • NIGEL DAVID GRINDLEY
  • T A Kunkel
  • STEPHEN BENKOVIC
  • ERIC KOOL
  • Angela M DeLucia
  • Oya Bermek
  • Olga Potapova
  • Elizabeth H Z Thompson
  • Andrew F Gardner
  • Vandana Purohit
  • Robert M Turner
  • Dana T Minnick
  • David P Millar
  • Wai Chung Lam
  • Sandra A Helquist
  • Santanov Chaudhuri
  • Chikio Chan
  • William E Jack
  • Michael F Bailey
  • Edwin J C van der Schans
  • Lixing Liu
  • Xiaojun Chen Sun

Detail Information

Publications17

  1. pmc Prechemistry nucleotide selection checkpoints in the reaction pathway of DNA polymerase I and roles of glu710 and tyr766
    Oya Bermek
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, United States
    Biochemistry 52:6258-74. 2013
    ..Thus, both mutator alleles cause a blurring of the distinction between correct and incorrect base pairs and result in a larger fraction of errors passing through the prechemistry fidelity checkpoints. ..
  2. pmc Techniques used to study the DNA polymerase reaction pathway
    Catherine M Joyce
    Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, P O Box 208114, New Haven, CT 06520 8114, USA
    Biochim Biophys Acta 1804:1032-40. 2010
    ..Fluorescence-based assays have been devised in order to study these conformational transitions and the results obtained have added new detail to the reaction pathway...
  3. ncbi Fingers-closing and other rapid conformational changes in DNA polymerase I (Klenow fragment) and their role in nucleotide selectivity
    Catherine M Joyce
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA
    Biochemistry 47:6103-16. 2008
    ..The early kinetic checkpoints identified by this study provide an efficient mechanism for the rejection of mismatched bases and ribose sugars and thus enhance polymerase throughput...
  4. ncbi DNA polymerase fidelity: kinetics, structure, and checkpoints
    Catherine M Joyce
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    Biochemistry 43:14317-24. 2004
    ....
  5. pmc T4 replication: what does "processivity" really mean?
    Catherine M Joyce
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA
    Proc Natl Acad Sci U S A 101:8255-6. 2004
  6. ncbi Conformational changes during normal and error-prone incorporation of nucleotides by a Y-family DNA polymerase detected by 2-aminopurine fluorescence
    Angela M DeLucia
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    Biochemistry 46:10790-803. 2007
    ....
  7. ncbi The properties of steric gate mutants reveal different constraints within the active sites of Y-family and A-family DNA polymerases
    Angela M DeLucia
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA
    J Biol Chem 281:27286-91. 2006
    ..In Klenow fragment the templating base is more rigidly held, so that changes in base pair geometry would affect the dNTP position, allowing the Glu710 side chain to serve as a sensor of nascent mispairs...
  8. pmc An error-prone family Y DNA polymerase (DinB homolog from Sulfolobus solfataricus) uses a 'steric gate' residue for discrimination against ribonucleotides
    Angela M DeLucia
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520 8114, USA
    Nucleic Acids Res 31:4129-37. 2003
    ..When making a deletion error, ribonucleotide discrimination by wild-type and F12A Dbh is the same as in normal DNA synthesis, indicating that the geometry of nucleotide binding is similar in both circumstances...
  9. ncbi Use of 2-aminopurine fluorescence to examine conformational changes during nucleotide incorporation by DNA polymerase I (Klenow fragment)
    Vandana Purohit
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA
    Biochemistry 42:10200-11. 2003
    ....
  10. ncbi Interaction of DNA polymerase I (Klenow fragment) with the single-stranded template beyond the site of synthesis
    Robert M Turner
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    Biochemistry 42:2373-85. 2003
    ..Overall, the data are most consistent with the template strand following a path over the fingers subdomain, close to the side chain of R836 and a neighboring cluster of positively charged residues...
  11. pmc DNA polymerase catalysis in the absence of Watson-Crick hydrogen bonds: analysis by single-turnover kinetics
    Olga Potapova
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA
    Biochemistry 45:890-8. 2006
    ..In contrast, the Y-family polymerase Dbh was much less sensitive to changes in base pair dimensions and more dependent upon hydrogen bonding between base-paired partners...
  12. ncbi The mutational specificity of the Dbh lesion bypass polymerase and its implications
    Olga Potapova
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    J Biol Chem 277:28157-66. 2002
    ..We suspect that the unusual mutational specificity of Dbh (which is shared with other polymerases from the DinB branch of the bypass polymerase family) may be related to the type of DNA lesion(s) that it serves to bypass in vivo...
  13. pmc Distinct roles of the active-site Mg2+ ligands, Asp882 and Asp705, of DNA polymerase I (Klenow fragment) during the prechemistry conformational transitions
    Oya Bermek
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA
    J Biol Chem 286:3755-66. 2011
    ....
  14. pmc Discrimination against purine-pyrimidine mispairs in the polymerase active site of DNA polymerase I: a structural explanation
    Dana T Minnick
    Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, NC 27709, USA
    Proc Natl Acad Sci U S A 99:1194-9. 2002
    ..Moreover, this same side chain enhances the stability of incoming correct dNTPs, such that loss of this interaction on removal of the side chain leads to lower selectivity against mismatches involving incoming pyrimidines...
  15. ncbi Determinants of DNA mismatch recognition within the polymerase domain of the Klenow fragment
    Elizabeth H Z Thompson
    Department of Molecular Biology, MB 19, The Scripps Research Institute, La Jolla, California 92037, USA
    Biochemistry 41:713-22. 2002
    ..Moreover, this study suggests a mechanism whereby the Klenow fragment is able to recognize polymerase errors following a misincorporation event, leading to their eventual removal by the 3'-5' exonuclease activity...
  16. ncbi Comparative kinetics of nucleotide analog incorporation by vent DNA polymerase
    Andrew F Gardner
    New England Biolabs Inc, Beverly, Massachusetts 01915, USA
    J Biol Chem 279:11834-42. 2004
    ....
  17. ncbi 3'-5' exonuclease of Klenow fragment: role of amino acid residues within the single-stranded DNA binding region in exonucleolysis and duplex DNA melting
    Wai Chung Lam
    Department of Molecular Biology, MB 19, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Biochemistry 41:3943-51. 2002
    ....