English

Reply to Comment on "Criterion that Determines the Foldability of Proteins"

Condensed Matter 2009-10-28 v2 q-bio

Abstract

We point out that the correlation between folding times and σ=(TθTf)/Tθ\sigma = (T_{\theta } - T_{f})/T_{\theta } in protein-like heteropolymer models where TθT_{\theta } and TfT_{f} are the collapse and folding transition temperatures was already established in 1993 before the other presumed equivalent criterion (folding times correlating with TfT_{f} alone) was suggested. We argue that the folding times for these models show no useful correlation with the energy gap even if restricted to the ensemble of compact structures as suggested by Karplus and Shakhnovich (cond-mat/9606037).

Keywords

Cite

@article{arxiv.cond-mat/9607060,
  title  = {Reply to Comment on "Criterion that Determines the Foldability of Proteins"},
  author = {D. K. Klimov and D. Thirumalai},
  journal= {arXiv preprint arXiv:cond-mat/9607060},
  year   = {2009}
}

Comments

6 pages, Latex, 2 Postscript figures. Plots explicitly showing the lack of correlation between folding time and energy gap are added