2004/05/07 by Navin Singh, Singh, Navin, Yashwant Singh +1
Biochemistry, Genetics and Molecular Biology · Chemistry · Physics and Astronomy · #DNA and Nucleic Acid Chemistry #Electrostatics and Colloid Interactions #FOS: Physical sciences #Protein Structure and Dynamics #Soft Condensed Matter (cond-mat.soft) #Statistical Mechanics (cond-mat.stat-mech) #cond-mat.soft #cond-mat.stat-mech
paper · pdf · doi:10.48550/arxiv.cond-mat/0405135
Appeared in Proceeding of Conference on "Liquid Crystals and other Soft materials", held at RRI, Bangalore India
arxiv created 2004/05/07 · openalex publication_date 2004/05/07 · arxiv updated 2009/12/01 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/28
Double stranded DNA chain is known to have nontrivial elasticity. We study the effect of this elasticity on the denaturation profile of DNA oligomer by constraining one base pair at one end of the oligomer to remain in unstretched (or intact) state. The effect of this constraint on the denaturation profile of the oligomer has been calculated using the Peyrard-Bishop Hamiltonian. The denaturation profile is found to be very different from the free (i.e. without the constraint) oligomer. We have also examined how this constraint affects the denaturation profile of the oligomer having a segment of defect sites located at different parts of the chain.