English

Protein folding as a jamming transition

Soft Condensed Matter 2025-03-28 v1 Biological Physics

Abstract

Proteins fold to a specific functional conformation with a densely packed hydrophobic core that controls their stability. We develop a geometric, yet all-atom model for proteins that explains the universal core packing fraction of ϕc=0.55\phi_c=0.55 found in experimental measurements. We show that as the hydrophobic interactions increase relative to the temperature, a novel jamming transition occurs when the core packing fraction exceeds ϕc\phi_c. The model also recapitulates the global structure of proteins since it can accurately refold to native-like structures from partially unfolded states.

Keywords

Cite

@article{arxiv.2405.09646,
  title  = {Protein folding as a jamming transition},
  author = {Alex T. Grigas and Zhuoyi Liu and Jack A. Logan and Mark D. Shattuck and Corey S. O'Hern},
  journal= {arXiv preprint arXiv:2405.09646},
  year   = {2025}
}

Comments

5 pages, 4 figures

R2 v1 2026-06-28T16:28:43.771Z