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Further thermo‐stabilization of thermophilic rhodopsin from Thermus thermophilus JL‐18 through engineering in extramembrane regions

It is known that a hyperthermostable protein tolerable at temperatures over 100°C can be designed from a soluble globular protein by introducing mutations. To expand the applicability of this technology to membrane proteins, here we report a further thermo‐stabilization of the thermophilic rhodopsin...

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Autores principales: Akiyama, Tomoki, Kunishima, Naoki, Nemoto, Sayaka, Kazama, Kazuki, Hirose, Masako, Sudo, Yuki, Matsuura, Yoshinori, Naitow, Hisashi, Murata, Takeshi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley & Sons, Inc. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7894484/
https://www.ncbi.nlm.nih.gov/pubmed/33064333
http://dx.doi.org/10.1002/prot.26015
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author Akiyama, Tomoki
Kunishima, Naoki
Nemoto, Sayaka
Kazama, Kazuki
Hirose, Masako
Sudo, Yuki
Matsuura, Yoshinori
Naitow, Hisashi
Murata, Takeshi
author_facet Akiyama, Tomoki
Kunishima, Naoki
Nemoto, Sayaka
Kazama, Kazuki
Hirose, Masako
Sudo, Yuki
Matsuura, Yoshinori
Naitow, Hisashi
Murata, Takeshi
author_sort Akiyama, Tomoki
collection PubMed
description It is known that a hyperthermostable protein tolerable at temperatures over 100°C can be designed from a soluble globular protein by introducing mutations. To expand the applicability of this technology to membrane proteins, here we report a further thermo‐stabilization of the thermophilic rhodopsin from Thermus thermophilus JL‐18 as a model membrane protein. Ten single mutations in the extramembrane regions were designed based on a computational prediction of folding free‐energy differences upon mutation. Experimental characterizations using the UV‐visible spectroscopy and the differential scanning calorimetry revealed that four of ten mutations were thermo‐stabilizing: V79K, T114D, A115P, and A116E. The mutation‐structure relationship of the TR constructs was analyzed using molecular dynamics simulations at 300 K and at 1800 K that aimed simulating structures in the native and in the random‐coil states, respectively. The native‐state simulation exhibited an ion‐pair formation of the stabilizing V79K mutant as it was designed, and suggested a mutation‐induced structural change of the most stabilizing T114D mutant. On the other hand, the random‐coil‐state simulation revealed a higher structural fluctuation of the destabilizing mutant S8D when compared to the wild type, suggesting that the higher entropy in the random‐coil state deteriorated the thermal stability. The present thermo‐stabilization design in the extramembrane regions based on the free‐energy calculation and the subsequent evaluation by the molecular dynamics may be useful to improve the production of membrane proteins for structural studies.
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spelling pubmed-78944842021-03-02 Further thermo‐stabilization of thermophilic rhodopsin from Thermus thermophilus JL‐18 through engineering in extramembrane regions Akiyama, Tomoki Kunishima, Naoki Nemoto, Sayaka Kazama, Kazuki Hirose, Masako Sudo, Yuki Matsuura, Yoshinori Naitow, Hisashi Murata, Takeshi Proteins Research Articles It is known that a hyperthermostable protein tolerable at temperatures over 100°C can be designed from a soluble globular protein by introducing mutations. To expand the applicability of this technology to membrane proteins, here we report a further thermo‐stabilization of the thermophilic rhodopsin from Thermus thermophilus JL‐18 as a model membrane protein. Ten single mutations in the extramembrane regions were designed based on a computational prediction of folding free‐energy differences upon mutation. Experimental characterizations using the UV‐visible spectroscopy and the differential scanning calorimetry revealed that four of ten mutations were thermo‐stabilizing: V79K, T114D, A115P, and A116E. The mutation‐structure relationship of the TR constructs was analyzed using molecular dynamics simulations at 300 K and at 1800 K that aimed simulating structures in the native and in the random‐coil states, respectively. The native‐state simulation exhibited an ion‐pair formation of the stabilizing V79K mutant as it was designed, and suggested a mutation‐induced structural change of the most stabilizing T114D mutant. On the other hand, the random‐coil‐state simulation revealed a higher structural fluctuation of the destabilizing mutant S8D when compared to the wild type, suggesting that the higher entropy in the random‐coil state deteriorated the thermal stability. The present thermo‐stabilization design in the extramembrane regions based on the free‐energy calculation and the subsequent evaluation by the molecular dynamics may be useful to improve the production of membrane proteins for structural studies. John Wiley & Sons, Inc. 2020-10-28 2021-03 /pmc/articles/PMC7894484/ /pubmed/33064333 http://dx.doi.org/10.1002/prot.26015 Text en © 2020 The Authors. Proteins: Structure, Function, and Bioinformatics published by Wiley Periodicals LLC. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Articles
Akiyama, Tomoki
Kunishima, Naoki
Nemoto, Sayaka
Kazama, Kazuki
Hirose, Masako
Sudo, Yuki
Matsuura, Yoshinori
Naitow, Hisashi
Murata, Takeshi
Further thermo‐stabilization of thermophilic rhodopsin from Thermus thermophilus JL‐18 through engineering in extramembrane regions
title Further thermo‐stabilization of thermophilic rhodopsin from Thermus thermophilus JL‐18 through engineering in extramembrane regions
title_full Further thermo‐stabilization of thermophilic rhodopsin from Thermus thermophilus JL‐18 through engineering in extramembrane regions
title_fullStr Further thermo‐stabilization of thermophilic rhodopsin from Thermus thermophilus JL‐18 through engineering in extramembrane regions
title_full_unstemmed Further thermo‐stabilization of thermophilic rhodopsin from Thermus thermophilus JL‐18 through engineering in extramembrane regions
title_short Further thermo‐stabilization of thermophilic rhodopsin from Thermus thermophilus JL‐18 through engineering in extramembrane regions
title_sort further thermo‐stabilization of thermophilic rhodopsin from thermus thermophilus jl‐18 through engineering in extramembrane regions
topic Research Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7894484/
https://www.ncbi.nlm.nih.gov/pubmed/33064333
http://dx.doi.org/10.1002/prot.26015
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