Victor B Zhurkin

Summary

Affiliation: National Institutes of Health
Country: USA

Publications

  1. pmc Impact of Alu repeats on the evolution of human p53 binding sites
    Feng Cui
    Laboratory of Cell Biology, National Cancer Institute, NIH, Bethesda, MD 20892, USA
    Biol Direct 6:2. 2011
  2. pmc p53 binding to nucleosomal DNA depends on the rotational positioning of DNA response element
    Geetaram Sahu
    Laboratory of Chemistry, Division of Therapeutic Proteins, Center for Drug Evaluation and Research, Food and Drug Administration, Bethesda, Maryland 20892, USA
    J Biol Chem 285:1321-32. 2010
  3. pmc Distinctive sequence patterns in metazoan and yeast nucleosomes: implications for linker histone binding to AT-rich and methylated DNA
    Feng Cui
    Laboratory of Cell Biology, National Cancer Institute, NIH, Bethesda, MD 20892, USA
    Nucleic Acids Res 37:2818-29. 2009
  4. pmc DNA trajectory in the Gal repressosome
    Szabolcs Semsey
    Laboratory of Molecular Biology, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892, USA
    Genes Dev 18:1898-907. 2004
  5. pmc Sequence-dependent Kink-and-Slide deformations of nucleosomal DNA facilitated by histone arginines bound in the minor groove
    Difei Wang
    Laboratory of Cell Biology, National Cancer Institute, NIH, Bethesda, MD 20892, USA
    J Biomol Struct Dyn 27:843-59. 2010
  6. pmc A-tract clusters may facilitate DNA packaging in bacterial nucleoid
    Michael Y Tolstorukov
    Laboratory of Experimental and Computational Biology, National Cancer Institute Bethesda, MD 20892, USA
    Nucleic Acids Res 33:3907-18. 2005
  7. pmc A novel roll-and-slide mechanism of DNA folding in chromatin: implications for nucleosome positioning
    Michael Y Tolstorukov
    National Cancer Institute, Bethesda, MD 20892, USA
    J Mol Biol 371:725-38. 2007
  8. pmc Structure-based analysis of DNA sequence patterns guiding nucleosome positioning in vitro
    Feng Cui
    Laboratory of Cell Biology, National Cancer Institute, NIH, Bethesda, MD 20892, USA
    J Biomol Struct Dyn 27:821-41. 2010
  9. ncbi request reprint Protein-DNA hydrophobic recognition in the minor groove is facilitated by sugar switching
    Michael Y Tolstorukov
    Laboratory of Experimental and Computational Biology, National Cancer Institute, National Institutes of Health, Bg 12B, Rm B116, Bethesda, MD 20892 5677, USA
    J Mol Biol 337:65-76. 2004
  10. ncbi request reprint Iodine-125 radioprobing of E. coli RNA polymerase transcription elongation complexes
    Valeri N Karamychev
    Department of Nuclear Medicine, Warren G Magnuson Clinical Center, National Institutes of Health, Bethesda, Maryland 20892, USA
    Methods Enzymol 371:106-20. 2003

Collaborators

Detail Information

Publications10

  1. pmc Impact of Alu repeats on the evolution of human p53 binding sites
    Feng Cui
    Laboratory of Cell Biology, National Cancer Institute, NIH, Bethesda, MD 20892, USA
    Biol Direct 6:2. 2011
    ..The relationship between these BSs and functional p53 response elements (REs) remains unknown, however. We sought to understand whether the p53 REs also reside in transposable elements and particularly in the most-abundant Alu repeats...
  2. pmc p53 binding to nucleosomal DNA depends on the rotational positioning of DNA response element
    Geetaram Sahu
    Laboratory of Chemistry, Division of Therapeutic Proteins, Center for Drug Evaluation and Research, Food and Drug Administration, Bethesda, Maryland 20892, USA
    J Biol Chem 285:1321-32. 2010
    ..Our observations indicate that the orientation of the binding sites on a nucleosome may play a significant role in the initial p53-DNA recognition and subsequent cofactor recruitment...
  3. pmc Distinctive sequence patterns in metazoan and yeast nucleosomes: implications for linker histone binding to AT-rich and methylated DNA
    Feng Cui
    Laboratory of Cell Biology, National Cancer Institute, NIH, Bethesda, MD 20892, USA
    Nucleic Acids Res 37:2818-29. 2009
    ..The same mechanism accounts for the high affinity of LH to methylated DNA-a feature critical for stabilization of the higher-order structure of chromatin and for repression of transcription...
  4. pmc DNA trajectory in the Gal repressosome
    Szabolcs Semsey
    Laboratory of Molecular Biology, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892, USA
    Genes Dev 18:1898-907. 2004
    ..In this structure the center of the HU-binding site is located at the apex of the DNA loop. The approach reported here can be used to distinguish between otherwise indistinguishable DNA trajectories in complex nucleoprotein machines...
  5. pmc Sequence-dependent Kink-and-Slide deformations of nucleosomal DNA facilitated by histone arginines bound in the minor groove
    Difei Wang
    Laboratory of Cell Biology, National Cancer Institute, NIH, Bethesda, MD 20892, USA
    J Biomol Struct Dyn 27:843-59. 2010
    ....
  6. pmc A-tract clusters may facilitate DNA packaging in bacterial nucleoid
    Michael Y Tolstorukov
    Laboratory of Experimental and Computational Biology, National Cancer Institute Bethesda, MD 20892, USA
    Nucleic Acids Res 33:3907-18. 2005
    ....
  7. pmc A novel roll-and-slide mechanism of DNA folding in chromatin: implications for nucleosome positioning
    Michael Y Tolstorukov
    National Cancer Institute, Bethesda, MD 20892, USA
    J Mol Biol 371:725-38. 2007
    ..The close correspondence between the predicted and observed nucleosome locations demonstrates the potential advantage of our "structural" approach in the computer mapping of nucleosome positioning...
  8. pmc Structure-based analysis of DNA sequence patterns guiding nucleosome positioning in vitro
    Feng Cui
    Laboratory of Cell Biology, National Cancer Institute, NIH, Bethesda, MD 20892, USA
    J Biomol Struct Dyn 27:821-41. 2010
    ..The results presented here may be useful for genome-wide classification of nucleosomes, linking together structural and thermodynamic characteristics of nucleosomes with the underlying DNA sequence patterns guiding their positions...
  9. ncbi request reprint Protein-DNA hydrophobic recognition in the minor groove is facilitated by sugar switching
    Michael Y Tolstorukov
    Laboratory of Experimental and Computational Biology, National Cancer Institute, National Institutes of Health, Bg 12B, Rm B116, Bethesda, MD 20892 5677, USA
    J Mol Biol 337:65-76. 2004
    ..The sequence preference for the B-to-A sugar repuckering, observed for pyrimidines, suggests that the described DNA deformations contribute to specificity of the protein-DNA recognition in the minor groove...
  10. ncbi request reprint Iodine-125 radioprobing of E. coli RNA polymerase transcription elongation complexes
    Valeri N Karamychev
    Department of Nuclear Medicine, Warren G Magnuson Clinical Center, National Institutes of Health, Bethesda, Maryland 20892, USA
    Methods Enzymol 371:106-20. 2003