Protein Unfolding and the Diffusion Collision Model

2000/11/01 by Chris Beck, Beck, Chris, Xavier Siemens +1
Biochemistry, Genetics and Molecular Biology · Materials Science · Physics and Astronomy · #Enzyme Structure and Function #FOS: Biological sciences #FOS: Physical sciences #Protein Structure and Dynamics #Quantitative Biology (q-bio) #Soft Condensed Matter (cond-mat.soft) #Theoretical and Computational Physics #cond-mat.soft #q-bio

paper · pdf · doi:10.48550/arxiv.cond-mat/0011024

12 pages, 1 figure

openalex publication_date 2000/11/01 · arxiv created 2001/05/01 · arxiv updated 2009/11/30 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/28

Abstract

In the diffusion-collision model, the unfolding or backward rates are given by the likelihood of secondary structural cluster dissociation. In this work, we introduce a backward rate calculation modeled from a Kramers-type thermal tunneling through a barrier, which represents the free energy potential well for buried hydrophobic residues. Our results are in good agreement with currently accepted values and the approach suggests a link between the diffusion-collision and folding funnel models of protein folding.

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