Literature DB >> 18479088

Expanding the realm of ultrafast protein folding: gpW, a midsize natural single-domain with alpha+beta topology that folds downhill.

Adam Fung1, Peng Li, Raquel Godoy-Ruiz, Jose M Sanchez-Ruiz, Victor Muñoz.   

Abstract

All ultrafast folding proteins known to date are either very small in size (less than 45 residues), have an alpha-helix bundle topology, or have been artificially engineered. In fact, many of them share two or even all three features. Here we show that gpW, a natural 62-residue alpha+beta protein expected to fold slowly in a two-state fashion, folds in microseconds (i.e., from tau = 33 micros at 310 K to tau = 1.7 micros at 355 K). Thermodynamic analyses of gpW reveal probe dependent thermal denaturation, complex coupling between two denaturing agents, and differential scanning calorimetry (DSC) thermogram characteristic of folding over a negligible thermodynamic folding barrier. The free energy surface analysis of gpW folding kinetics also produces a marginal folding barrier of about thermal energy ( RT) at the denaturation midpoint. From these results we conclude that gpW folds in the downhill regime and is close to the global downhill limit. This protein seems to be poised toward downhill folding by a loosely packed hydrophobic core with low aromatic content, large stabilizing contributions from local interactions, and abundance of positive charges on the native surface. These special features, together with a complex functional role in bacteriophage lambda assembly, suggest that gpW has been engineered to fold downhill by natural selection.

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Year:  2008        PMID: 18479088     DOI: 10.1021/ja801401a

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


  30 in total

1.  Improvement of structure-based potentials for protein folding by native and nonnative hydrogen bonds.

Authors:  Marta Enciso; Antonio Rey
Journal:  Biophys J       Date:  2011-09-20       Impact factor: 4.033

2.  Equilibrium unfolding of the PDZ domain of β2-syntrophin.

Authors:  Gabriela María Torchio; Mario Roberto Ermácora; Mauricio Pablo Sica
Journal:  Biophys J       Date:  2012-06-19       Impact factor: 4.033

3.  Sequence, structure, and cooperativity in folding of elementary protein structural motifs.

Authors:  Jason K Lai; Ginka S Kubelka; Jan Kubelka
Journal:  Proc Natl Acad Sci U S A       Date:  2015-07-27       Impact factor: 11.205

4.  A natural missing link between activated and downhill protein folding scenarios.

Authors:  Feng Liu; Caroline Maynard; Gregory Scott; Artem Melnykov; Kathleen B Hall; Martin Gruebele
Journal:  Phys Chem Chem Phys       Date:  2010-02-11       Impact factor: 3.676

5.  Exploiting the downhill folding regime via experiment.

Authors:  Victor Muñoz; Mourad Sadqi; Athi N Naganathan; David de Sancho
Journal:  HFSP J       Date:  2008-10-13

Review 6.  An expanding arsenal of experimental methods yields an explosion of insights into protein folding mechanisms.

Authors:  Alice I Bartlett; Sheena E Radford
Journal:  Nat Struct Mol Biol       Date:  2009-06       Impact factor: 15.369

7.  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

8.  Native topology of the designed protein Top7 is not conducive to cooperative folding.

Authors:  Zhuqing Zhang; Hue Sun Chan
Journal:  Biophys J       Date:  2009-02       Impact factor: 4.033

9.  A simple model for the disintegration of highly charged solvent droplets during electrospray ionization.

Authors:  Lars Konermann
Journal:  J Am Soc Mass Spectrom       Date:  2008-11-21       Impact factor: 3.109

10.  Ultrafast folding kinetics of WW domains reveal how the amino acid sequence determines the speed limit to protein folding.

Authors:  Malwina Szczepaniak; Manuel Iglesias-Bexiga; Michele Cerminara; Mourad Sadqi; Celia Sanchez de Medina; Jose C Martinez; Irene Luque; Victor Muñoz
Journal:  Proc Natl Acad Sci U S A       Date:  2019-04-09       Impact factor: 11.205

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