A One-Dimensional System Undergoing First-Order Diffuse Phase Transition

Saitô, Nobuhiko; Oonuki, Makoto

doi:10.1143/jpsj.29.69

Cited by 10 publications

(2 citation statements)

References 10 publications

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“…The basis of Professor Saitô’s work on protein structures was the statistical mechanical treatment of α -helices and extended structures with short-range and medium-range interactions [28]. The statistical mechanics of a one-dimensional system undergoing first-order diffuse phase transitions [29] was developed to obtain a statistical mechanical theory of the folding pathways of proteins [30,31], thus generating the island model [28]. …”

Section: Genesis Of the Island Model: From Polymers To Proteinsmentioning

confidence: 99%

“…Onuki and Professor Saitô explained the helix-coil transition using a model for a one-dimensional lattice gas with repulsive potentials between nearest neighbors and attractive potentials between next-nearest neighbors [29]. This model exhibits a diffuse first-order phase transition and thus can be regarded as a lattice gas version of the helix-coil transition in a polypeptide.…”

Section: Statistical Mechanical Foundation Of Protein Structure Formamentioning

confidence: 99%

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Statistical mechanics of protein structural transitions: Insights from the island model

Kobayashi

2016

BIOPHYSICS

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The so-called island model of protein structural transition holds that hydrophobic interactions are the key to both the folding and function of proteins. Herein, the genesis and statistical mechanical basis of the island model of transitions are reviewed, by presenting the results of simulations of such transitions. Elucidating the physicochemical mechanism of protein structural formation is the foundation for understanding the hierarchical structure of life at the microscopic level. Based on the results obtained to date using the island model, remaining problems and future work in the field of protein structures are discussed, referencing Professor Saitô’s views on the hierarchic structure of science.

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Section: Genesis Of the Island Model: From Polymers To Proteinsmentioning

confidence: 99%

Section: Statistical Mechanical Foundation Of Protein Structure Formamentioning

confidence: 99%

Statistical mechanics of protein structural transitions: Insights from the island model

Kobayashi

2016

BIOPHYSICS

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Time partition function analysis of a neural network

Oonuki

1972

J Stat Phys

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Frustration-induced protein intrinsic disorder

Matsushita

Kikuchi

2013

The Journal of Chemical Physics

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Spontaneous folding into a specific native structure is the most important property of protein to perform their biological functions within organisms. Spontaneous folding is understood on the basis of an energy landscape picture based on the minimum frustration principle. Therefore, frustration seemingly only leads to protein functional disorder. However, frustration has recently been suggested to have a function in allosteric regulation. Functional frustration has the possibility to be a key to our deeper understanding of protein function. To explore another functional frustration, we theoretically examined structural frustration, which is designed to induce intrinsic disorder of a protein and its function through the coupled folding and binding. We extended the Wako-Saitô-Muñoz-Eaton model to take into account a frustration effect. With the model, we analyzed the binding part of neuron-restrictive silencer factor and showed that designed structural frustration in it induces intrinsic disorder. Furthermore, we showed that the folding and the binding are cooperative in interacting with a target protein. The cooperativity enables an intrinsically disordered protein to exhibit a sharp switch-like folding response to binding chemical potential change. Through this switch-like response, the structural frustration may contribute to the regulation function of interprotein interaction of the intrinsically disordered protein.

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A One-Dimensional System Undergoing First-Order Diffuse Phase Transition

Cited by 10 publications

References 10 publications

Statistical mechanics of protein structural transitions: Insights from the island model

Statistical mechanics of protein structural transitions: Insights from the island model

Time partition function analysis of a neural network

Frustration-induced protein intrinsic disorder

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