Analysis of scanning force microscopy images of protein-induced DNA bending using simulations

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Analysis of scanning force microscopy images of protein-induced DNA bending using simulations

Publisher
Oxford University Press
Publication Date
Jan 01, 2005
Source
PMC
Keywords
Disciplines
  • Biology
License
Unknown

Abstract

Bending of DNA is a feature essential to the function of many DNA-binding proteins. Bending angles can be estimated with a variety of techniques, but most directly from images obtained using scanning force microscopy (SFM). Direct measurement of the bending angle using a tangent method often produces angles that deviate significantly from values obtained using other techniques. Here, we describe the application of SFM in combination with simulations of DNA as a means to estimate protein-induced bending angles in a reliable and unbiased fashion. In this manner, we were able to obtain accurate estimates for the bending angles induced by nuclear factor I, octamer-binding transcription factor 1, the human XPC-Rad23B complex.

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