Literature DB >> 8880906

Denaturants can accelerate folding rates in a class of globular proteins.

C J Camacho1, D Thirumalai.   

Abstract

We present a lattice Monte Carlo study to examine the effect of denaturants on the folding rates of simplified models of proteins. The two-dimensional model is made from a three-letter code mimicking the presence of hydrophobic, hydrophilic, and cysteine residues. We show that the rate of folding is maximum when the effective hydrophobic interaction epsilon H is approximately equal to the free energy gain epsilon S upon forming disulfide bonds. In the range 1 < or = epsilon H/ epsilon S < or = 3, multiple paths that connect several intermediates to the native state lead to fast folding. It is shown that at a fixed temperature and epsilon S the folding rate increases as epsilon H decreases. An approximate model is used to show that epsilon H should decrease as a function of the concentration of denaturants such as urea or guanidine hydrochloride. Our simulation results, in conjunction with this model, are used to show that increasing the concentration of denaturants can lead to an increase in folding rates. This occurs because denaturants can destabilize the intermediates without significantly altering the energy of the native conformation. Our findings are compared with experiments on the effects of denaturants on the refolding of bovine pancreatic trypsin inhibitor and ribonuclease T1. We also argue that the phenomenon of denaturant-enhanced folding of proteins should be general.

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Year:  1996        PMID: 8880906      PMCID: PMC2143547          DOI: 10.1002/pro.5560050908

Source DB:  PubMed          Journal:  Protein Sci        ISSN: 0961-8368            Impact factor:   6.725


  14 in total

1.  Modeling the role of disulfide bonds in protein folding: entropic barriers and pathways.

Authors:  C J Camacho; D Thirumalai
Journal:  Proteins       Date:  1995-05

2.  Role of proline peptide bond isomerization in unfolding and refolding of ribonuclease.

Authors:  F X Schmid; R Grafl; A Wrba; J J Beintema
Journal:  Proc Natl Acad Sci U S A       Date:  1986-02       Impact factor: 11.205

Review 3.  Experimental studies of protein folding and unfolding.

Authors:  T E Creighton
Journal:  Prog Biophys Mol Biol       Date:  1978       Impact factor: 3.667

4.  Urea and guanidine hydrochloride denaturation of ribonuclease, lysozyme, alpha-chymotrypsin, and beta-lactoglobulin.

Authors:  R F Greene; C N Pace
Journal:  J Biol Chem       Date:  1974-09-10       Impact factor: 5.157

Review 5.  Principles of protein folding--a perspective from simple exact models.

Authors:  K A Dill; S Bromberg; K Yue; K M Fiebig; D P Yee; P D Thomas; H S Chan
Journal:  Protein Sci       Date:  1995-04       Impact factor: 6.725

6.  Funnels, pathways, and the energy landscape of protein folding: a synthesis.

Authors:  J D Bryngelson; J N Onuchic; N D Socci; P G Wolynes
Journal:  Proteins       Date:  1995-03

7.  Multiparameter kinetic study on the unfolding and refolding of bovine carbonic anhydrase B.

Authors:  L F McCoy; E S Rowe; K P Wong
Journal:  Biochemistry       Date:  1980-10-14       Impact factor: 3.162

8.  Reexamination of the folding of BPTI: predominance of native intermediates.

Authors:  J S Weissman; P S Kim
Journal:  Science       Date:  1991-09-20       Impact factor: 47.728

9.  Solvent denaturation and stabilization of globular proteins.

Authors:  D O Alonso; K A Dill
Journal:  Biochemistry       Date:  1991-06-18       Impact factor: 3.162

10.  Folding of RNase T1 is decelerated by a specific tertiary contact in a folding intermediate.

Authors:  T Kiefhaber; H P Grunert; U Hahn; F X Schmid
Journal:  Proteins       Date:  1992-02
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  8 in total

1.  Magnesium-dependent folding of self-splicing RNA: exploring the link between cooperativity, thermodynamics, and kinetics.

Authors:  J Pan; D Thirumalai; S A Woodson
Journal:  Proc Natl Acad Sci U S A       Date:  1999-05-25       Impact factor: 11.205

2.  Folding without charges.

Authors:  Martin Kurnik; Linda Hedberg; Jens Danielsson; Mikael Oliveberg
Journal:  Proc Natl Acad Sci U S A       Date:  2012-03-27       Impact factor: 11.205

3.  Folding and unfolding of gammaTIM monomers and dimers.

Authors:  Brijesh Patel; John M Finke
Journal:  Biophys J       Date:  2007-06-01       Impact factor: 4.033

4.  Structural analysis of kinetic folding intermediates for a TIM barrel protein, indole-3-glycerol phosphate synthase, by hydrogen exchange mass spectrometry and Gō model simulation.

Authors:  Zhenyu Gu; Maithreyi K Rao; William R Forsyth; John M Finke; C Robert Matthews
Journal:  J Mol Biol       Date:  2007-09-14       Impact factor: 5.469

5.  Urea orientation at protein surfaces.

Authors:  Xin Chen; Laura B Sagle; Paul S Cremer
Journal:  J Am Chem Soc       Date:  2007-11-15       Impact factor: 15.419

6.  Equilibrium and kinetic folding pathways of a TIM barrel with a funneled energy landscape.

Authors:  John M Finke; José N Onuchic
Journal:  Biophys J       Date:  2005-04-15       Impact factor: 4.033

7.  Salt-induced detour through compact regions of the protein folding landscape.

Authors:  D E Otzen; M Oliveberg
Journal:  Proc Natl Acad Sci U S A       Date:  1999-10-12       Impact factor: 11.205

8.  Influence of exogenous application of glutathione on rubisco and rubisco activase in heavy metal-stressed tobacco plant grown in vitro.

Authors:  Jeong Ah Son; Damodaran Puthanveettil Narayanankutty; Kwang Soo Roh
Journal:  Saudi J Biol Sci       Date:  2013-06-15       Impact factor: 4.219

  8 in total

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