A molecular perspective on the limits of life: Enzymes under pressure
From a purely operational standpoint, the existence of microbes that can grow under extreme conditions, or "extremophiles", leads to the question of how the molecules making up these microbes can maintain both their structure and function. While microbes that live under extremes of tempera...
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| Published in: | Condensed Matter Physics |
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| Date: | 2016 |
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Інститут фізики конденсованих систем НАН України
2016
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| Online Access: | https://nasplib.isofts.kiev.ua/handle/123456789/155773 |
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| Cite this: | A molecular perspective on the limits of life: Enzymes under pressure / Q. Huang, K.N. Tran, J.M. Rodgers, D.H. Bartlett, R.J. Hemley, T. Ichiye // Condensed Matter Physics. — 2016. — Т. 19, № 2. — С. 22801: 1–16. — Бібліогр.: 87 назв. — англ. |
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Huang, Q. Tran, K.N. Rodgers, J.M. Bartlett, D.H. Hemley, R.J. Ichiye, T. 2019-06-17T12:11:06Z 2019-06-17T12:11:06Z 2016 A molecular perspective on the limits of life: Enzymes under pressure / Q. Huang, K.N. Tran, J.M. Rodgers, D.H. Bartlett, R.J. Hemley, T. Ichiye // Condensed Matter Physics. — 2016. — Т. 19, № 2. — С. 22801: 1–16. — Бібліогр.: 87 назв. — англ. 1607-324X DOI:10.5488/CMP.19.22801 arXiv:1603.06901 PACS: 87.14.ej, 87.15.La, 87.15.B- https://nasplib.isofts.kiev.ua/handle/123456789/155773 From a purely operational standpoint, the existence of microbes that can grow under extreme conditions, or "extremophiles", leads to the question of how the molecules making up these microbes can maintain both their structure and function. While microbes that live under extremes of temperature have been heavily studied, those that live under extremes of pressure have been neglected, in part due to the difficulty of collecting samples and performing experiments under the ambient conditions of the microbe. However, thermodynamic arguments imply that the effects of pressure might lead to different organismal solutions than from the effects of temperature. Observationally, some of these solutions might be in the condensed matter properties of the intracellular milieu in addition to genetic modifications of the macromolecules or repair mechanisms for the macromolecules. Here, the effects of pressure on enzymes, which are proteins essential for the growth and reproduction of an organism, and some adaptations against these effects are reviewed and amplified by the results from molecular dynamics simulations. The aim is to provide biological background for soft matter studies of these systems under pressure. З чисто функцiональної точки зору iснування мiкробiв, що можуть рости в екстремальних умовах, чи “екстремофiлiв”, приводить до питання як молекули, з яких створенi цi мiкроби, можуть пiдтримувати їх структуру i функцiю. Тодi як мiкроби, що живуть при екстремумах температури, були докладно дослiдженi, то тi, що живуть при екстремумах тиску, нехтувались, частково через труднощi в збираннi зразкiв та проведеннi експериментiв при нормальних умовах для мiкроба. Однак, термодинамiчнi аргументи передбачають, що ефекти тиску могли б привести до рiзних органiзмових варiантiв нiж ефекти температури. Очевидно, деякi з варiантiв моли б бути серед властивостей конденсованої речовини у внутрiклiтиннiй рiдинi на додаток до генних модифiкацiй макромолекул чи вiдновлювальних механiзмiв для макромолекул. В даному оглядi ефекти тиску на ензими, якi є важливими протеїнам для росту i репродукцiї органiзму, та деякi аргументи проти цих ефектiв аналiзуються та доповнюються результатами моделювання методом молекулярної динамiки. Метою огляду є закласти бiологiчну основу для дослiджень цих систем пiд тиском з точки зору м’якої речовини. QH, KNT, and TI are grateful for support from the National Science Foundation through Grant No. CHE-1464766, the National Institutes of Health through Grant No. R21-GM104500, and from the McGowan Foundation. JMR and RJH acknowledge support from the U.S. Department of Energy/National Nuclear Security Administration through Grant No. DE-NA-0002006 for the Carnegie/DOE Alliance Center (CDAC) and from the Alfred P. Sloan Foundation through the Deep Carbon Observatory. DHB is grateful to support from the National Science Foundation (0801973, 0827051, and 1536776), the National Aeronautics and Space Administration (NNX11AG10G), and the Prince Albert II Foundation (Project 1265). This work used computer time on the Extreme Science and Engineering Discovery Environment (XSEDE) granted via MCB990010, which is supported by National Science Foundation Grant No. OCI-1053575 and the Medusa cluster, which is maintained by University Information Services at Georgetown University. Anton computer time was provided by the National Center for Multiscale Modelling of Biological Systems (MMBioS) through grant P41GM103712-S1 from the National Institutes of Health and the Pittsburgh Supercomputing Center (PSC). The Anton machine at PSC was generously made available by D.E. Shaw Research. en Інститут фізики конденсованих систем НАН України Condensed Matter Physics A molecular perspective on the limits of life: Enzymes under pressure Молекулярнi перспективи для границь життя: ензими пiд тиском Article published earlier |
| institution |
Digital Library of Periodicals of National Academy of Sciences of Ukraine |
| collection |
DSpace DC |
| title |
A molecular perspective on the limits of life: Enzymes under pressure |
| spellingShingle |
A molecular perspective on the limits of life: Enzymes under pressure Huang, Q. Tran, K.N. Rodgers, J.M. Bartlett, D.H. Hemley, R.J. Ichiye, T. |
| title_short |
A molecular perspective on the limits of life: Enzymes under pressure |
| title_full |
A molecular perspective on the limits of life: Enzymes under pressure |
| title_fullStr |
A molecular perspective on the limits of life: Enzymes under pressure |
| title_full_unstemmed |
A molecular perspective on the limits of life: Enzymes under pressure |
| title_sort |
molecular perspective on the limits of life: enzymes under pressure |
| author |
Huang, Q. Tran, K.N. Rodgers, J.M. Bartlett, D.H. Hemley, R.J. Ichiye, T. |
| author_facet |
Huang, Q. Tran, K.N. Rodgers, J.M. Bartlett, D.H. Hemley, R.J. Ichiye, T. |
| publishDate |
2016 |
| language |
English |
| container_title |
Condensed Matter Physics |
| publisher |
Інститут фізики конденсованих систем НАН України |
| format |
Article |
| title_alt |
Молекулярнi перспективи для границь життя: ензими пiд тиском |
| description |
From a purely operational standpoint, the existence of microbes that can grow under extreme conditions, or "extremophiles", leads to the question of how the molecules making up these microbes can maintain both their structure and function. While microbes that live under extremes of temperature have been heavily studied, those that live under extremes of pressure have been neglected, in part due to the difficulty of collecting samples and performing experiments under the ambient conditions of the microbe. However, thermodynamic arguments imply that the effects of pressure might lead to different organismal solutions than from the effects of temperature. Observationally, some of these solutions might be in the condensed matter properties of the intracellular milieu in addition to genetic modifications of the macromolecules or repair mechanisms for the macromolecules. Here, the effects of pressure on enzymes, which are proteins essential for the growth and reproduction of an organism, and some adaptations against these effects are reviewed and amplified by the results from molecular dynamics simulations. The aim is to provide biological background for soft matter studies of these systems under pressure.
З чисто функцiональної точки зору iснування мiкробiв, що можуть рости в екстремальних умовах, чи
“екстремофiлiв”, приводить до питання як молекули, з яких створенi цi мiкроби, можуть пiдтримувати їх
структуру i функцiю. Тодi як мiкроби, що живуть при екстремумах температури, були докладно дослiдженi,
то тi, що живуть при екстремумах тиску, нехтувались, частково через труднощi в збираннi зразкiв та проведеннi експериментiв при нормальних умовах для мiкроба. Однак, термодинамiчнi аргументи передбачають, що ефекти тиску могли б привести до рiзних органiзмових варiантiв нiж ефекти температури.
Очевидно, деякi з варiантiв моли б бути серед властивостей конденсованої речовини у внутрiклiтиннiй
рiдинi на додаток до генних модифiкацiй макромолекул чи вiдновлювальних механiзмiв для макромолекул. В даному оглядi ефекти тиску на ензими, якi є важливими протеїнам для росту i репродукцiї органiзму,
та деякi аргументи проти цих ефектiв аналiзуються та доповнюються результатами моделювання методом молекулярної динамiки. Метою огляду є закласти бiологiчну основу для дослiджень цих систем пiд
тиском з точки зору м’якої речовини.
|
| issn |
1607-324X |
| url |
https://nasplib.isofts.kiev.ua/handle/123456789/155773 |
| citation_txt |
A molecular perspective on the limits of life: Enzymes under pressure / Q. Huang, K.N. Tran, J.M. Rodgers, D.H. Bartlett, R.J. Hemley, T. Ichiye // Condensed Matter Physics. — 2016. — Т. 19, № 2. — С. 22801: 1–16. — Бібліогр.: 87 назв. — англ. |
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2025-12-07T13:22:51Z |
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