Refolding upon force quench and pathways of mechanical and thermal unfolding of ubiquitin

Details Refolding upon force quench and pathways of mechanical and thermal unfolding of ubiquitin Refolding upon force quench and pathways of mechanical and thermal unfolding of ubiquitin

2006-11-24

arxiv.org/abs/q-bio/0611080v1

Biophysical Journal, 92, 547-561 (2007)

Biology

Quantitative Biology

Biomolecules

35 pages, 15 figures, 1 table

Scientific paper

10.1529/biophysj.106.087684

The refolding from stretched initial conformations of ubiquitin (PDB ID: 1ubq) under the quenched force is studied using the Go model and the Langevin dynamics. It is shown that the refolding decouples the collapse and folding kinetics. The force quench refolding times scale as tau_F ~ exp(f_q*x_F/k_B*T), where f_q is the quench force and x_F = 0.96 nm is the location of the average transition state along the reaction coordinate given by the end-to-end distance. This value is close to x_F = 0.8 nm obtained from the force-clamp experiments. The mechanical and thermal unfolding pathways are studied and compared with the experimental and all-atom simulation results in detail. The sequencing of thermal unfolding was found to be markedly different from the mechanical one. It is found that fixing the N-terminus of ubiquitin changes its mechanical unfolding pathways much more drastically compared to the case when the C-end is anchored. We obtained the distance between the native state and the transition state x_UF=0.24 nm which is in reasonable agreement with the experimental data.

Affiliated with

Also associated with

No associations

Rating

Refolding upon force quench and pathways of mechanical and thermal unfolding of ubiquitin does not yet have a rating. At this time, there are no reviews or comments for this scientific paper.

If you have personal experience with Refolding upon force quench and pathways of mechanical and thermal unfolding of ubiquitin, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Refolding upon force quench and pathways of mechanical and thermal unfolding of ubiquitin will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFWR-SCP-O-540464