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  1. The Journal of Chemical Physics
  2. Year: 2003, Volume: 118
  3. Year: 2003, Volume: 118, Issue: 7
  4. Master equation approach to finding the rate-limiting steps in biopolymer folding
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Year: 2003, Volume: 119
Year: 2003, Volume: 118
Year: 2003, Volume: 118, Issue: 7
Master equation approach to finding the rate-limiting steps in biopolymer folding

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Master equation approach to finding the rate-limiting steps in biopolymer folding

Content Provider PubMed Central
Author Zhang, Wenbing Chen, Shi-jie
Abstract A master equation approach is developed to find the rate-limiting steps in biopolymer folding, where the folding kinetics is described as a linear combination of basic kinetic modes determined from the eigenvalues and eigenvectors of the rate matrix. Because the passage of a rate-limiting step is intrinsically related to the folding speed, it is possible to probe and to identify the rate-limiting steps through the folding from different unfolded initial conformations. In a master equation approach, slow and fast folding speeds are directly correlated to the large and small contributions of the (rate-limiting) slow kinetic modes. Because the contributions from the slow modes can be computed from the corresponding eigenvectors, the rate-limiting steps can be identified from the eigenvectors of the slow modes. Our rate-limiting searching method has been tested for a simplified hairpin folding kinetics model, and it may provide a general transition state searching method for biopolymer folding.
Related Links http://dx.doi.org/10.1063/1.1538596
Starting Page 3413
File Format PDF
ISSN 00219606
e-ISSN 10897690
Journal The Journal of chemical physics
Issue Number 7
Volume Number 118
Language English
Publisher Date 2003-01-01
Access Restriction Open
Subject Keyword Physical and Theoretical Chemistry Physics and Astronomy(all) Research in Higher Education
Content Type Text
Resource Type Article
Subject Physics and Astronomy Medicine Physical and Theoretical Chemistry
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