Literature DB >> 10322218

Deciphering the timescales and mechanisms of protein folding using minimal off-lattice models.

D Thirumalai1, D K Klimov.   

Abstract

Considerable insights into the mechanisms and timescales of protein folding have been obtained from detailed studies of minimal off-lattice models. These models are coarse-grained representations of polypeptide chains. Many novel predictions of the mechanisms and timescales of the folding of proteins have been made using simulations of off-lattice models. The concepts derived from these simulations have been used to analyze the recent experiments and simulations of proteins and peptides.

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Year:  1999        PMID: 10322218     DOI: 10.1016/S0959-440X(99)80028-1

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  39 in total

1.  Chain entropy: spoiler or benefactor in pattern recognition?

Authors:  M Muthukumar
Journal:  Proc Natl Acad Sci U S A       Date:  1999-10-12       Impact factor: 11.205

2.  A simple model for calculating the kinetics of protein folding from three-dimensional structures.

Authors:  V Muñoz; W A Eaton
Journal:  Proc Natl Acad Sci U S A       Date:  1999-09-28       Impact factor: 11.205

3.  Exploring the origins of topological frustration: design of a minimally frustrated model of fragment B of protein A.

Authors:  J E Shea; J N Onuchic; C L Brooks
Journal:  Proc Natl Acad Sci U S A       Date:  1999-10-26       Impact factor: 11.205

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

Authors:  B Gillespie; K W Plaxco
Journal:  Proc Natl Acad Sci U S A       Date:  2000-10-24       Impact factor: 11.205

5.  How the folding rate constant of simple, single-domain proteins depends on the number of native contacts.

Authors:  Dmitrii E Makarov; Craig A Keller; Kevin W Plaxco; Horia Metiu
Journal:  Proc Natl Acad Sci U S A       Date:  2002-03-19       Impact factor: 11.205

Review 6.  Searching for "downhill scenarios" in protein folding.

Authors:  W A Eaton
Journal:  Proc Natl Acad Sci U S A       Date:  1999-05-25       Impact factor: 11.205

7.  Watching proteins fold one molecule at a time.

Authors:  Elizabeth Rhoades; Eugene Gussakovsky; Gilad Haran
Journal:  Proc Natl Acad Sci U S A       Date:  2003-02-28       Impact factor: 11.205

8.  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

9.  Fast-folding protein kinetics, hidden intermediates, and the sequential stabilization model.

Authors:  S Banu Ozkan; Ken A Dill; Ivet Bahar
Journal:  Protein Sci       Date:  2002-08       Impact factor: 6.725

Review 10.  Capturing the essence of folding and functions of biomolecules using coarse-grained models.

Authors:  Changbong Hyeon; D Thirumalai
Journal:  Nat Commun       Date:  2011-09-27       Impact factor: 14.919

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