Literature DB >> 17147395

Nanosecond folding dynamics of a three-stranded beta-sheet.

Yao Xu1, Pradipta Purkayastha, Feng Gai.   

Abstract

We studied conformational stability and folding kinetics of a three-stranded beta-sheet containing two rigid turns. Static infrared measurements indicate that this beta-sheet undergoes a broad but cooperative thermal unfolding transition with a midpoint at approximately 53 degrees C. Interestingly, time-resolved infrared experiments show that its relaxation kinetics in response to a temperature-jump (T-jump) occur on the nanosecond time scale (e.g., the relaxation time is approximately 140 ns at 35.0 degrees C), thereby suggesting that the conformational relaxation encounters only a small free energy barrier or even proceeds in a downhill manner. Further Langevin dynamics simulations suggest that the observed T-jump relaxation kinetics could be modeled by a conformational diffusion process along a single-well free energy profile, which allowed us to determine the effective diffusion constant and also the roughness of the folding energy landscape.

Mesh:

Substances:

Year:  2006        PMID: 17147395     DOI: 10.1021/ja064865+

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  19 in total

1.  Ultrafast dynamics of protein collapse from single-molecule photon statistics.

Authors:  Daniel Nettels; Irina V Gopich; Armin Hoffmann; Benjamin Schuler
Journal:  Proc Natl Acad Sci U S A       Date:  2007-02-14       Impact factor: 11.205

2.  Heterogeneity even at the speed limit of folding: large-scale molecular dynamics study of a fast-folding variant of the villin headpiece.

Authors:  Daniel L Ensign; Peter M Kasson; Vijay S Pande
Journal:  J Mol Biol       Date:  2007-09-29       Impact factor: 5.469

3.  Dehydration-driven solvent exposure of hydrophobic surfaces as a driving force in peptide folding.

Authors:  Isabella Daidone; Martin B Ulmschneider; Alfredo Di Nola; Andrea Amadei; Jeremy C Smith
Journal:  Proc Natl Acad Sci U S A       Date:  2007-09-19       Impact factor: 11.205

4.  A one-dimensional free energy surface does not account for two-probe folding kinetics of protein alpha(3)D.

Authors:  Feng Liu; Charles Dumont; Yongjin Zhu; William F DeGrado; Feng Gai; Martin Gruebele
Journal:  J Chem Phys       Date:  2009-02-14       Impact factor: 3.488

Review 5.  The protein folding problem.

Authors:  Ken A Dill; S Banu Ozkan; M Scott Shell; Thomas R Weikl
Journal:  Annu Rev Biophys       Date:  2008       Impact factor: 12.981

6.  Analysis of the free-energy surface of proteins from reversible folding simulations.

Authors:  Lucy R Allen; Sergei V Krivov; Emanuele Paci
Journal:  PLoS Comput Biol       Date:  2009-07-10       Impact factor: 4.475

7.  Atomic-level description of ubiquitin folding.

Authors:  Stefano Piana; Kresten Lindorff-Larsen; David E Shaw
Journal:  Proc Natl Acad Sci U S A       Date:  2013-03-15       Impact factor: 11.205

8.  Mutational effects on the folding dynamics of a minimized hairpin.

Authors:  Michele Scian; Irene Shu; Katherine A Olsen; Khalil Hassam; Niels H Andersen
Journal:  Biochemistry       Date:  2013-04-05       Impact factor: 3.162

9.  Probing the folding transition state structure of the villin headpiece subdomain via side chain and backbone mutagenesis.

Authors:  Michelle R Bunagan; Jianmin Gao; Jeffery W Kelly; Feng Gai
Journal:  J Am Chem Soc       Date:  2009-06-03       Impact factor: 15.419

10.  Protein dynamics: from molecules, to interactions, to biology.

Authors:  Martin Gruebele
Journal:  Int J Mol Sci       Date:  2009-03-20       Impact factor: 6.208

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.