Literature DB >> 12517448

Is there a unifying mechanism for protein folding?

Valerie Daggett1, Alan R Fersht.   

Abstract

Proteins appear to fold by diverse pathways, but variations of a simple mechanism - nucleation-condensation - describe the overall features of folding of most domains. In general, secondary structure is inherently unstable and its stability is enhanced by tertiary interactions. Consequently, an extensive interplay of secondary and tertiary interactions determines the transition-state for folding, which is structurally similar to the native state, being formed in a general collapse (condensation) around a diffuse nucleus. As the propensity for stable secondary structure increases, folding becomes more hierarchical and eventually follows a framework mechanism where the transition state is assembled from pre-formed secondary structural elements.

Mesh:

Year:  2003        PMID: 12517448     DOI: 10.1016/s0968-0004(02)00012-9

Source DB:  PubMed          Journal:  Trends Biochem Sci        ISSN: 0968-0004            Impact factor:   13.807


  127 in total

1.  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

Review 2.  Getting a grip on non-native proteins.

Authors:  Peter C Stirling; Victor F Lundin; Michel R Leroux
Journal:  EMBO Rep       Date:  2003-06       Impact factor: 8.807

3.  Ultrafast folding of alpha3D: a de novo designed three-helix bundle protein.

Authors:  Yongjin Zhu; Darwin O V Alonso; Kosuke Maki; Cheng-Yen Huang; Steven J Lahr; Valerie Daggett; Heinrich Roder; William F DeGrado; Feng Gai
Journal:  Proc Natl Acad Sci U S A       Date:  2003-12-11       Impact factor: 11.205

4.  Collapse and search dynamics of apomyoglobin folding revealed by submillisecond observations of alpha-helical content and compactness.

Authors:  Takanori Uzawa; Shuji Akiyama; Tetsunari Kimura; Satoshi Takahashi; Koichiro Ishimori; Isao Morishima; Tetsuro Fujisawa
Journal:  Proc Natl Acad Sci U S A       Date:  2004-01-07       Impact factor: 11.205

5.  Single-molecule transition-state analysis of RNA folding.

Authors:  Gregory Bokinsky; David Rueda; Vinod K Misra; Maria M Rhodes; Andrew Gordus; Hazen P Babcock; Nils G Walter; Xiaowei Zhuang
Journal:  Proc Natl Acad Sci U S A       Date:  2003-07-17       Impact factor: 11.205

6.  Calculation of mutational free energy changes in transition states for protein folding.

Authors:  Kresten Lindorff-Larsen; Emanuele Paci; Luis Serrano; Christopher M Dobson; Michele Vendruscolo
Journal:  Biophys J       Date:  2003-08       Impact factor: 4.033

7.  Unifying features in protein-folding mechanisms.

Authors:  Stefano Gianni; Nicholas R Guydosh; Faaizah Khan; Teresa D Caldas; Ugo Mayor; George W N White; Mari L DeMarco; Valerie Daggett; Alan R Fersht
Journal:  Proc Natl Acad Sci U S A       Date:  2003-10-31       Impact factor: 11.205

8.  Caging helps proteins fold.

Authors:  D Thirumalai; Dmitri K Klimov; George H Lorimer
Journal:  Proc Natl Acad Sci U S A       Date:  2003-09-23       Impact factor: 11.205

Review 9.  How do proteins avoid becoming too stable? Biophysical studies into metastable proteins.

Authors:  Lisa D Cabrita; Stephen P Bottomley
Journal:  Eur Biophys J       Date:  2003-09-19       Impact factor: 1.733

10.  Simulating disorder-order transitions in molecular recognition of unstructured proteins: where folding meets binding.

Authors:  Gennady M Verkhivker; Djamal Bouzida; Daniel K Gehlhaar; Paul A Rejto; Stephan T Freer; Peter W Rose
Journal:  Proc Natl Acad Sci U S A       Date:  2003-04-15       Impact factor: 11.205

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