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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 dependentforce required to stretch single stranded DNA (ssDNA) homo oligonucleotides.Simulations suggest that polyA and polyC oligonucleotides exhibit similarforce profiles and corresponding elongation. Among single stranded DNAstrands polyT is the most flexible and needs the most force to unwind froman equilibrium folded structure. In contrast, polyG had a very smallrecoverable deformation prior to a non-linear stretching. Our resultsindicate that mechanical properties of ssDNA chains are directly related totheir sequence.

Keywords

biologicalsimulationstrength

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References

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