Literature DB >> 12651955

Tuning the free-energy landscape of a WW domain by temperature, mutation, and truncation.

Houbi Nguyen1, Marcus Jager, Alessandro Moretto, Martin Gruebele, Jeffery W Kelly.   

Abstract

The equilibrium unfolding of the Formin binding protein 28 (FBP) WW domain, a stable three-stranded beta-sheet protein, can be described as reversible apparent two-state folding. Kinetics studied by laser temperature jump reveal a third state at temperatures below the midpoint of unfolding. The FBP free-energy surface can be tuned between three-state and two-state kinetics by changing the temperature, by truncation of the C terminus, or by selected point mutations. FBP WW domain is the smallest three-state folder studied to date and the only one that can be freely tuned between three-state and apparent two-state folding by several methods (temperature, truncation, and mutation). Its small size (28-37 residues), the availability of a quantitative reaction coordinate (phi(T)), the fast folding time scale (10s of micros), and the tunability of the folding routes by small temperature or sequence changes make this system the ideal prototype for studying more subtle features of the folding free-energy landscape by simulations or analytical theory.

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Year:  2003        PMID: 12651955      PMCID: PMC153028          DOI: 10.1073/pnas.0538054100

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


  26 in total

1.  The speed limit for protein folding measured by triplet-triplet energy transfer.

Authors:  O Bieri; J Wirz; B Hellrung; M Schutkowski; M Drewello; T Kiefhaber
Journal:  Proc Natl Acad Sci U S A       Date:  1999-08-17       Impact factor: 11.205

2.  Mapping the transition state of the WW domain beta-sheet.

Authors:  J C Crane; E K Koepf; J W Kelly; M Gruebele
Journal:  J Mol Biol       Date:  2000-04-28       Impact factor: 5.469

3.  Ultrafast folding of WW domains without structured aromatic clusters in the denatured state.

Authors:  N Ferguson; C M Johnson; M Macias; H Oschkinat; A Fersht
Journal:  Proc Natl Acad Sci U S A       Date:  2001-10-30       Impact factor: 11.205

Review 4.  Protein folding: the free energy surface.

Authors:  Martin Gruebele
Journal:  Curr Opin Struct Biol       Date:  2002-04       Impact factor: 6.809

5.  Computer-based redesign of a protein folding pathway.

Authors:  S Nauli; B Kuhlman; D Baker
Journal:  Nat Struct Biol       Date:  2001-07

6.  The structural basis for biphasic kinetics in the folding of the WW domain from a formin-binding protein: lessons for protein design?

Authors:  John Karanicolas; Charles L Brooks
Journal:  Proc Natl Acad Sci U S A       Date:  2003-03-24       Impact factor: 11.205

7.  Structural and functional analysis of the mitotic rotamase Pin1 suggests substrate recognition is phosphorylation dependent.

Authors:  R Ranganathan; K P Lu; T Hunter; J P Noel
Journal:  Cell       Date:  1997-06-13       Impact factor: 41.582

Review 8.  Structure and function of the WW domain.

Authors:  M Sudol
Journal:  Prog Biophys Mol Biol       Date:  1996       Impact factor: 3.667

9.  Structure of the WW domain of a kinase-associated protein complexed with a proline-rich peptide.

Authors:  M J Macias; M Hyvönen; E Baraldi; J Schultz; M Sudol; M Saraste; H Oschkinat
Journal:  Nature       Date:  1996-08-15       Impact factor: 49.962

10.  Formin binding proteins bear WWP/WW domains that bind proline-rich peptides and functionally resemble SH3 domains.

Authors:  D C Chan; M T Bedford; P Leder
Journal:  EMBO J       Date:  1996-03-01       Impact factor: 11.598

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  65 in total

1.  The structural basis for biphasic kinetics in the folding of the WW domain from a formin-binding protein: lessons for protein design?

Authors:  John Karanicolas; Charles L Brooks
Journal:  Proc Natl Acad Sci U S A       Date:  2003-03-24       Impact factor: 11.205

2.  Meeting halfway on the bridge between protein folding theory and experiment.

Authors:  Vijay S Pande
Journal:  Proc Natl Acad Sci U S A       Date:  2003-03-25       Impact factor: 11.205

3.  Rapid amyloid fiber formation from the fast-folding WW domain FBP28.

Authors:  Neil Ferguson; John Berriman; Miriana Petrovich; Timothy D Sharpe; John T Finch; Alan R Fersht
Journal:  Proc Natl Acad Sci U S A       Date:  2003-08-01       Impact factor: 11.205

4.  A de novo redesign of the WW domain.

Authors:  Christina M Kraemer-Pecore; Juliette T J Lecomte; John R Desjarlais
Journal:  Protein Sci       Date:  2003-10       Impact factor: 6.725

5.  The complex kinetics of protein folding in wide temperature ranges.

Authors:  Jin Wang
Journal:  Biophys J       Date:  2004-10       Impact factor: 4.033

6.  Downhill kinetics of biomolecular interface binding: globally connected scenario.

Authors:  Jin Wang; Weimin Huang; Hongyang Lu; Erkang Wang
Journal:  Biophys J       Date:  2004-10       Impact factor: 4.033

7.  Probing the kinetics of single molecule protein folding.

Authors:  Vitor B P Leite; José N Onuchic; George Stell; Jin Wang
Journal:  Biophys J       Date:  2004-10-01       Impact factor: 4.033

8.  Calculation of rate spectra from noisy time series data.

Authors:  Vincent A Voelz; Vijay S Pande
Journal:  Proteins       Date:  2011-11-17

9.  Dynamics of an ultrafast folding subdomain in the context of a larger protein fold.

Authors:  Caitlin M Davis; R Brian Dyer
Journal:  J Am Chem Soc       Date:  2013-12-13       Impact factor: 15.419

10.  Principal component analysis for protein folding dynamics.

Authors:  Gia G Maisuradze; Adam Liwo; Harold A Scheraga
Journal:  J Mol Biol       Date:  2008-10-15       Impact factor: 5.469

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