Configurational diffusion down a folding funnel describes the dynamics of DNA hairpins.

Abstract:

:Elucidating the mechanism of folding of polynucleotides depends on accurate estimates of free energy surfaces and a quantitative description of the kinetics of structure formation. Here, the kinetics of hairpin formation in single-stranded DNA are measured after a laser temperature jump. The kinetics are modeled as configurational diffusion on a free energy surface obtained from a statistical mechanical description of equilibrium melting profiles. The effective diffusion coefficient is found to be strongly temperature-dependent in the nucleation step as a result of formation of misfolded loops that do not lead to subsequent zipping. This simple system exhibits many of the features predicted from theoretical studies of protein folding, including a funnel-like energy surface with many folding pathways, trapping in misfolded conformations, and non-Arrhenius folding rates.

authors

Ansari A,Kuznetsov SV,Shen Y

doi

10.1073/pnas.131477798

keywords:

subject

Has Abstract

pub_date

2001-07-03 00:00:00

pages

7771-6

issue

14

eissn

0027-8424

issn

1091-6490

pii

98/14/7771

journal_volume

98

pub_type

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