2009/03/31 by Garima Mishra, Debaprasad Giri, Sanjay Kumar
Biochemistry, Genetics and Molecular Biology · Chemistry · Engineering · Mathematics · Physics and Astronomy · #Base (topology) #Base pair #Biochemistry #Biology #Chemical physics #Chemistry #Crystallography #DNA #DNA and Nucleic Acid Chemistry #Force Microscopy Techniques and Applications #Helix (gastropod) #Mathematical analysis #Mathematics #Nanopore and Nanochannel Transport Studies #Plateau (mathematics) #Stacking #Stereochemistry #Thymine #Transition (genetics) #cond-mat.soft #cond-mat.stat-mech
paper · pdf · doi:10.1103/physreve.79.031930
published as Phys. Rev. E 79, 031930 (2009) · 10 pages, 4 figures
openalex publication_date 2009/03/31 · arxiv created 2009/07/11 · arxiv updated 2015/05/13 · openalex created_date 2025/10/10 · openalex updated_date 2026/08/05
Recent experiments have shown that the force-extension (F-x) curve for single-stranded DNA (ssDNA) consisting only of adenine [poly(dA)] is significantly different from thymine [poly(dT)]. Here, we show that the base stacking interaction is not sufficient to describe the F-x curves as seen in the experiments. A reduction in the reaction coordinate arising from the formation of helix at low forces and an increase in the distance between consecutive phosphates of unstacked bases in the stretched state at high force in the proposed model qualitatively reproduce the experimentally observed features. The multistep plateau in the F-x curve is a signature of structural change in ssDNA.