Literature DB >> 11050233

Nonglassy kinetics in the folding of a simple single-domain protein.

B Gillespie1, K W Plaxco.   

Abstract

Theory suggests that the otherwise rapid folding of simple heteropolymer models becomes "glassy"-dominated by multiple kinetically trapped misfolded states-at low temperatures or when the overall bias toward the native state is reduced relative to the depth of local minima. Experimental observations of nonsingle-exponential protein-folding kinetics have been taken as evidence that the protein-folding free energy landscape is similarly rough. No equivalent analysis, however, has been reported for a simple single-domain protein lacking prolines, disulfide bonds, prosthetic groups, or other gross structural features that might complicate folding. In an effort to characterize the glassiness of a folding free energy landscape in the absence of these potentially complicating factors, we have monitored the folding of a kinetically simple protein, peptostreptococcal protein L (protein L). We observe no statistically significant deviation from homogeneous single-exponential relaxation kinetics across temperatures ranging from near the protein's melting temperature to as low as -15 degrees C. On the basis of these observations, we estimate that, if there is a glass transition in the folding of protein L, it occurs at least 45 degrees C and possibly more than 145 degrees C below the freezing point of water. Apparently the folding free energy landscape of protein L is extremely smooth, which may be indicative of a rate-limiting step in folding that is, effectively, a nonglassy process.

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Year:  2000        PMID: 11050233      PMCID: PMC17286          DOI: 10.1073/pnas.97.22.12014

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  42 in total

1.  Chain collapse can occur concomitantly with the rate-limiting step in protein folding.

Authors:  K W Plaxco; I S Millett; D J Segel; S Doniach; D Baker
Journal:  Nat Struct Biol       Date:  1999-06

2.  Folding pathway of a lattice model for proteins.

Authors:  V S Pande; D S Rokhsar
Journal:  Proc Natl Acad Sci U S A       Date:  1999-02-16       Impact factor: 11.205

3.  Protein folding kinetics exhibit an Arrhenius temperature dependence when corrected for the temperature dependence of protein stability.

Authors:  M L Scalley; D Baker
Journal:  Proc Natl Acad Sci U S A       Date:  1997-09-30       Impact factor: 11.205

4.  Contact order, transition state placement and the refolding rates of single domain proteins.

Authors:  K W Plaxco; K T Simons; D Baker
Journal:  J Mol Biol       Date:  1998-04-10       Impact factor: 5.469

Review 5.  Protein folding and intermediates.

Authors:  A R Clarke; J P Waltho
Journal:  Curr Opin Biotechnol       Date:  1997-08       Impact factor: 9.740

6.  Toward an outline of the topography of a realistic protein-folding funnel.

Authors:  J N Onuchic; P G Wolynes; Z Luthey-Schulten; N D Socci
Journal:  Proc Natl Acad Sci U S A       Date:  1995-04-11       Impact factor: 11.205

7.  Proton nuclear magnetic resonance sequential assignments and secondary structure of an immunoglobulin light chain-binding domain of protein L.

Authors:  M Wikström; U Sjöbring; W Kastern; L Björck; T Drakenberg; S Forsén
Journal:  Biochemistry       Date:  1993-04-06       Impact factor: 3.162

Review 8.  Protein folding dynamics: the diffusion-collision model and experimental data.

Authors:  M Karplus; D L Weaver
Journal:  Protein Sci       Date:  1994-04       Impact factor: 6.725

9.  Spin glasses and the statistical mechanics of protein folding.

Authors:  J D Bryngelson; P G Wolynes
Journal:  Proc Natl Acad Sci U S A       Date:  1987-11       Impact factor: 11.205

10.  Folding and stability of a tryptophan-containing mutant of ubiquitin.

Authors:  S Khorasanizadeh; I D Peters; T R Butt; H Roder
Journal:  Biochemistry       Date:  1993-07-13       Impact factor: 3.162

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  12 in total

Review 1.  The topomer search model: A simple, quantitative theory of two-state protein folding kinetics.

Authors:  Dmitrii E Makarov; Kevin W Plaxco
Journal:  Protein Sci       Date:  2003-01       Impact factor: 6.725

2.  How fast is protein hydrophobic collapse?

Authors:  Mourad Sadqi; Lisa J Lapidus; Victor Muñoz
Journal:  Proc Natl Acad Sci U S A       Date:  2003-10-06       Impact factor: 11.205

3.  Alpha-helix formation in a photoswitchable peptide tracked from picoseconds to microseconds by time-resolved IR spectroscopy.

Authors:  Jens Bredenbeck; Jan Helbing; Janet R Kumita; G Andrew Woolley; Peter Hamm
Journal:  Proc Natl Acad Sci U S A       Date:  2005-02-07       Impact factor: 11.205

4.  Cooperativity and the origins of rapid, single-exponential kinetics in protein folding.

Authors:  Patrícia F N Faísca; Kevin W Plaxco
Journal:  Protein Sci       Date:  2006-07       Impact factor: 6.725

5.  A designed protein as experimental model of primordial folding.

Authors:  Mourad Sadqi; Eva de Alba; Raúl Pérez-Jiménez; Jose M Sanchez-Ruiz; Victor Muñoz
Journal:  Proc Natl Acad Sci U S A       Date:  2009-02-24       Impact factor: 11.205

6.  Emergence of glass-like behavior in Markov state models of protein folding dynamics.

Authors:  Jeffrey K Weber; Robert L Jack; Vijay S Pande
Journal:  J Am Chem Soc       Date:  2013-04-03       Impact factor: 15.419

7.  Analysis of kinetics using a hybrid maximum-entropy/nonlinear-least-squares method: application to protein folding.

Authors:  Peter J Steinbach; Roxana Ionescu; C Robert Matthews
Journal:  Biophys J       Date:  2002-04       Impact factor: 4.033

8.  Joule Heating and Thermal Denaturation of Proteins in Nano-ESI Theta Tips.

Authors:  Feifei Zhao; Sarah M Matt; Jiexun Bu; Owen G Rehrauer; Dor Ben-Amotz; Scott A McLuckey
Journal:  J Am Soc Mass Spectrom       Date:  2017-07-11       Impact factor: 3.109

9.  Analytical Description of Degradation-Relaxation Transformations in Nanoinhomogeneous Spinel Ceramics.

Authors:  O Shpotyuk; M Brunner; I Hadzaman; V Balitska; H Klym
Journal:  Nanoscale Res Lett       Date:  2016-11-14       Impact factor: 4.703

10.  De Novo Evolutionary Emergence of a Symmetrical Protein Is Shaped by Folding Constraints.

Authors:  Robert G Smock; Itamar Yadid; Orly Dym; Jane Clarke; Dan S Tawfik
Journal:  Cell       Date:  2016-01-21       Impact factor: 41.582

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