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Simulations of Stretching Single Stranded DNA

Published online by Cambridge University Press:  21 March 2011

Abhishek Singh  and
Yaroslava G. Yingling
Abhishek Singh
Affiliation:
Materials Science and Engineering, North Carolina State University, 911 Partners Way, Raleigh, NC, 27695 USA
Yaroslava G. Yingling
Affiliation:
Materials Science and Engineering, North Carolina State University, 911 Partners Way, Raleigh, NC, 27695 USA
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Abstract

Molecular dynamics simulations were performed to estimate sequence dependent force required to stretch single stranded DNA (ssDNA) homo oligonucleotides. Simulations suggest that polyA and polyC oligonucleotides exhibit similar force profiles and corresponding elongation. Among single stranded DNA strands polyT is the most flexible and needs the most force to unwind from an equilibrium folded structure. In contrast, polyG had a very small recoverable deformation prior to a non-linear stretching. Our results indicate that mechanical properties of ssDNA chains are directly related to their sequence.

Keywords

biologicalsimulationstrength
Type
Research Article
Information
MRS Online Proceedings Library (OPL) , Volume 1301: Symposium V/NN/OO/PP – Soft Matter, Biological Materials and Biomedical Materials—Synthesis, Characterization and Applications , 2011 , mrsf10-1301-oo10-06
Copyright
Copyright © Materials Research Society 2011

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