Cooperativity, Local-Nonlocal Coupling, and Nonnative Interactions: Principles of Protein Folding from Coarse-Grained Models
(2011) In Annual Review of Physical Chemistry 62. p.301-326- Abstract
- Coarse-grained, self-contained polymer models are powerful tools in the study of protein folding. They are also essential to assess predictions from less rigorous theoretical approaches that lack an explicit-chain representation. Here we review advances in coarse-grained modeling of cooperative protein folding, noting in particular that the Levinthal paradox was raised in response to the experimental discovery of two-state-like folding in the late 1960s, rather than to the problem of conformational search per se. Comparisons between theory and experiment indicate a prominent role of desolvation barriers in cooperative folding, which likely emerges generally from a coupling between local conformational preferences and nonlocal packing... (More)
- Coarse-grained, self-contained polymer models are powerful tools in the study of protein folding. They are also essential to assess predictions from less rigorous theoretical approaches that lack an explicit-chain representation. Here we review advances in coarse-grained modeling of cooperative protein folding, noting in particular that the Levinthal paradox was raised in response to the experimental discovery of two-state-like folding in the late 1960s, rather than to the problem of conformational search per se. Comparisons between theory and experiment indicate a prominent role of desolvation barriers in cooperative folding, which likely emerges generally from a coupling between local conformational preferences and nonlocal packing interactions. Many of these principles have been elucidated by native-centric models, wherein nonnative interactions may be treated perturbatively. We discuss these developments as well as recent applications of coarse-grained chain modeling to knotted proteins and to intrinsically disordered proteins. (Less)
Please use this url to cite or link to this publication:
https://lup.lub.lu.se/record/2029136
- author
- Chan, Hue Sun ; Zhang, Zhuqing ; Wallin, Stefan LU and Liu, Zhirong
- organization
- publishing date
- 2011
- type
- Contribution to journal
- publication status
- published
- subject
- keywords
- native topology, Levinthal paradox, folding funnel, energy landscape, desolvation, enthalpic barrier
- in
- Annual Review of Physical Chemistry
- volume
- 62
- pages
- 301 - 326
- publisher
- Annual Reviews
- external identifiers
-
- wos:000290636800015
- scopus:79953747234
- pmid:21453060
- ISSN
- 1545-1593
- DOI
- 10.1146/annurev-physchem-032210-103405
- language
- English
- LU publication?
- yes
- id
- 80f03362-142d-4171-be38-9cc7cb4a7cfe (old id 2029136)
- date added to LUP
- 2016-04-01 10:28:18
- date last changed
- 2023-01-02 04:59:10
@article{80f03362-142d-4171-be38-9cc7cb4a7cfe,
abstract = {{Coarse-grained, self-contained polymer models are powerful tools in the study of protein folding. They are also essential to assess predictions from less rigorous theoretical approaches that lack an explicit-chain representation. Here we review advances in coarse-grained modeling of cooperative protein folding, noting in particular that the Levinthal paradox was raised in response to the experimental discovery of two-state-like folding in the late 1960s, rather than to the problem of conformational search per se. Comparisons between theory and experiment indicate a prominent role of desolvation barriers in cooperative folding, which likely emerges generally from a coupling between local conformational preferences and nonlocal packing interactions. Many of these principles have been elucidated by native-centric models, wherein nonnative interactions may be treated perturbatively. We discuss these developments as well as recent applications of coarse-grained chain modeling to knotted proteins and to intrinsically disordered proteins.}},
author = {{Chan, Hue Sun and Zhang, Zhuqing and Wallin, Stefan and Liu, Zhirong}},
issn = {{1545-1593}},
keywords = {{native topology; Levinthal paradox; folding funnel; energy landscape; desolvation; enthalpic barrier}},
language = {{eng}},
pages = {{301--326}},
publisher = {{Annual Reviews}},
series = {{Annual Review of Physical Chemistry}},
title = {{Cooperativity, Local-Nonlocal Coupling, and Nonnative Interactions: Principles of Protein Folding from Coarse-Grained Models}},
url = {{http://dx.doi.org/10.1146/annurev-physchem-032210-103405}},
doi = {{10.1146/annurev-physchem-032210-103405}},
volume = {{62}},
year = {{2011}},
}