Erdal Toprak

Summary

Affiliation: University of Illinois
Country: USA

Publications

  1. ncbi request reprint New fluorescent tools for watching nanometer-scale conformational changes of single molecules
    Erdal Toprak
    Center for Biophysics and Computational Biology, University of Illinois, Urbana Champaign, Urbana, Illinois 61801, USA
    Annu Rev Biophys Biomol Struct 36:349-69. 2007
  2. doi request reprint Fluorescence Imaging with One-Nanometer Accuracy (FIONA)
    Paul R Selvin
    Biophysics Center and Physics Department, University of Illinois, Urbana, IL 61801, USA
    CSH Protoc 2007:pdb.top27. 2007
  3. doi request reprint Fluorescence Imaging with One-Nanometer Accuracy (FIONA) of Cy3-DNA under Deoxygenation Conditions
    Paul R Selvin
    Biophysics Center and Physics Department, University of Illinois, Urbana, IL 61801, USA
    CSH Protoc 2007:pdb.prot4868. 2007
  4. doi request reprint Constructing Sample Chambers for Fluorescence Imaging with One-Nanometer Accuracy (FIONA)
    Paul R Selvin
    Biophysics Center and Physics Department, University of Illinois, Urbana, IL 61801, USA
    CSH Protoc 2007:pdb.prot4867. 2007
  5. doi request reprint Data Analysis Methods for Fluorescence Imaging with One-Nanometer Accuracy (FIONA)
    Paul R Selvin
    Biophysics Center and Physics Department, University of Illinois, Urbana, IL, 61801, USA
    CSH Protoc 2007:pdb.ip46. 2007
  6. pmc Why kinesin is so processive
    Erdal Toprak
    Center for Biophysics and Computational Biology, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Proc Natl Acad Sci U S A 106:12717-22. 2009
  7. doi request reprint Equipment Setup for Fluorescence Imaging with One-Nanometer Accuracy (FIONA)
    Paul R Selvin
    Biophysics Center and Physics Department, University of Illinois, Urbana, IL 61801, USA
    CSH Protoc 2007:pdb.ip45. 2007
  8. doi request reprint Super-accuracy and super-resolution getting around the diffraction limit
    Erdal Toprak
    Department of Biophysics, University of Illinois, Urbana, Illinois, USA
    Methods Enzymol 475:1-26. 2010
  9. ncbi request reprint Single-molecule fluorescence to study molecular motors
    Hyokeun Park
    Department of Chemistry, University of Illinois, Urbana, IL, USA
    Q Rev Biophys 40:87-111. 2007
  10. pmc Myosin VI undergoes a 180 degrees power stroke implying an uncoupling of the front lever arm
    Jeff G Reifenberger
    Department of Physics, University of Illinois, Urbana, IL 61801, USA
    Proc Natl Acad Sci U S A 106:18255-60. 2009

Collaborators

Detail Information

Publications12

  1. ncbi request reprint New fluorescent tools for watching nanometer-scale conformational changes of single molecules
    Erdal Toprak
    Center for Biophysics and Computational Biology, University of Illinois, Urbana Champaign, Urbana, Illinois 61801, USA
    Annu Rev Biophys Biomol Struct 36:349-69. 2007
    ..Here we describe some of the most commonly used fluorescence imaging tools to measure nanoscale movements and the rotational dynamics of biomolecules...
  2. doi request reprint Fluorescence Imaging with One-Nanometer Accuracy (FIONA)
    Paul R Selvin
    Biophysics Center and Physics Department, University of Illinois, Urbana, IL 61801, USA
    CSH Protoc 2007:pdb.top27. 2007
    ..Finally, bright-field imaging with one-nanometer accuracy (bFIONA) achieves the temporal and spectral localization of FIONA but with bright-field microscopy, thus avoiding the use of fluorescence...
  3. doi request reprint Fluorescence Imaging with One-Nanometer Accuracy (FIONA) of Cy3-DNA under Deoxygenation Conditions
    Paul R Selvin
    Biophysics Center and Physics Department, University of Illinois, Urbana, IL 61801, USA
    CSH Protoc 2007:pdb.prot4868. 2007
    ..It is important that the fluorophores remain photostable throughout the experiment. This requires an oxygen-scavenging system (e.g., glucose oxidase and catalase) in the medium...
  4. doi request reprint Constructing Sample Chambers for Fluorescence Imaging with One-Nanometer Accuracy (FIONA)
    Paul R Selvin
    Biophysics Center and Physics Department, University of Illinois, Urbana, IL 61801, USA
    CSH Protoc 2007:pdb.prot4867. 2007
    ..This protocol provides details on constructing an inexpensive sample chamber for use in single-molecule FIONA experiments and two methods for cleaning slides and coverslips...
  5. doi request reprint Data Analysis Methods for Fluorescence Imaging with One-Nanometer Accuracy (FIONA)
    Paul R Selvin
    Biophysics Center and Physics Department, University of Illinois, Urbana, IL, 61801, USA
    CSH Protoc 2007:pdb.ip46. 2007
    ..Data analysis of a FIONA experiment requires the use of several software programs. Data must be acquired and exported into a proper format before analysis can take place. This article describes various options for data analysis...
  6. pmc Why kinesin is so processive
    Erdal Toprak
    Center for Biophysics and Computational Biology, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Proc Natl Acad Sci U S A 106:12717-22. 2009
    ..These 4 features reduce the likelihood that a kinesin I motor will dissociate and contribute to making this motor so highly processive...
  7. doi request reprint Equipment Setup for Fluorescence Imaging with One-Nanometer Accuracy (FIONA)
    Paul R Selvin
    Biophysics Center and Physics Department, University of Illinois, Urbana, IL 61801, USA
    CSH Protoc 2007:pdb.ip45. 2007
    ..This article describes procedures for setting up the equipment necessary for FIONA and achieving total internal reflection (TIR)...
  8. doi request reprint Super-accuracy and super-resolution getting around the diffraction limit
    Erdal Toprak
    Department of Biophysics, University of Illinois, Urbana, Illinois, USA
    Methods Enzymol 475:1-26. 2010
    ..In this chapter, we will describe some of the experimental approaches, from our lab and others, that push the limits of localization accuracy and optical resolution in fluorescence microscopy...
  9. ncbi request reprint Single-molecule fluorescence to study molecular motors
    Hyokeun Park
    Department of Chemistry, University of Illinois, Urbana, IL, USA
    Q Rev Biophys 40:87-111. 2007
    ..We explain new understanding of molecular motors obtained from measurements using these techniques...
  10. pmc Myosin VI undergoes a 180 degrees power stroke implying an uncoupling of the front lever arm
    Jeff G Reifenberger
    Department of Physics, University of Illinois, Urbana, IL 61801, USA
    Proc Natl Acad Sci U S A 106:18255-60. 2009
    ....
  11. pmc Defocused orientation and position imaging (DOPI) of myosin V
    Erdal Toprak
    Center for Biophysics and Computational Biology and Physics Department, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Proc Natl Acad Sci U S A 103:6495-9. 2006
    ..When beta changes, the probe rotates +/-27 degrees azimuthally around actin and then rotates back again on the next step. Our results remove degeneracy in angles and the appearance of nontilting lever arms that were reported...
  12. ncbi request reprint Three-dimensional particle tracking via bifocal imaging
    Erdal Toprak
    Department of Biophysics, University of Illinois Urbana Champaign, Urbana, Illinois 61801, USA
    Nano Lett 7:2043-5. 2007
    ..We applied our method to several systems including in vivo melanosome tracking and phagocytosed fluorescent bead tracking. We have achieved 2-5 nm accuracy with a 2-50 ms time resolution...