Hydrophobic collapse in multidomain protein folding

Science
Ruhong ZhouBruce J Berne

Abstract

We performed molecular dynamics simulations of the collapse of a two-domain protein, the BphC enzyme, into a globular structure to examine how water molecules mediate hydrophobic collapse of proteins. In the interdomain region, liquid water persists with a density 10 to 15% lower than in the bulk, even at small domain separations. Water depletion and hydrophobic collapse occur on a nanosecond time scale, which is two orders of magnitude slower than that found in the collapse of idealized paraffin-like plates. When the electrostatic protein-water forces are turned off, a dewetting transition occurs in the interdomain region and the collapse speeds up by more than an order of magnitude. When attractive van der Waals forces are turned off as well, the dewetting in the interdomain region is more profound, and the collapse is even faster.

References

Jul 13, 2000·Proceedings of the National Academy of Sciences of the United States of America·D M Huang, D Chandler
Oct 25, 2001·Journal of the American Chemical Society·H S Ashbaugh, M E Paulaitis
Apr 25, 2002·Annual Review of Physical Chemistry·Lawrence R Pratt
May 2, 2002·Proceedings of the National Academy of Sciences of the United States of America·Pieter Rein ten Wolde, David Chandler
May 31, 2002·Nature·David Chandler
Nov 7, 2002·Advances in Protein Chemistry·Michael E Paulaitis, Lawrence R Pratt
Feb 13, 2003·Journal of the American Chemical Society·Raymond D Mountain, D Thirumalai
Mar 14, 2003·Physical Review Letters·Kevin LeungDusan Bratko
Mar 14, 2003·Physical Review Letters·Torben R JensenThomas Bjørnholm
May 2, 2003·Nature·Philip Ball
Aug 12, 2003·Proteins·Ruhong ZhouPrasanna Athma
Sep 26, 2003·Proceedings of the National Academy of Sciences of the United States of America·X HuangB J Berne

❮ Previous
Next ❯

Citations

Dec 12, 2012·Quarterly Reviews of Biophysics·Pengyu RenNathan A Baker
Sep 21, 2013·Environmental Science & Technology·Xiaoxiang WangHongxia Yu
Mar 28, 2007·Journal of the American Chemical Society·Niharendu Choudhury, B Montgomery Pettitt
Apr 22, 2010·Journal of the American Chemical Society·Isaac T S Li, Gilbert C Walker
Apr 6, 2011·Journal of the American Chemical Society·Niladri Patra, Petr Král
Jun 23, 2011·Journal of the American Chemical Society·Krishnakumar M Ravikumar, Wonmuk Hwang
Jul 28, 2011·Journal of the American Chemical Society·Jasmin MecinovićGeorge M Whitesides
Aug 10, 2011·Journal of the American Chemical Society·Yufan HeH Peter Lu
Oct 13, 2012·Journal of the American Chemical Society·Zhen XiaRuhong Zhou
Jan 9, 2013·Journal of the American Chemical Society·Payel DasC Robert Matthews
Jan 31, 2013·Journal of the American Chemical Society·Seung-gu KangRuhong Zhou
Jul 30, 2008·Journal of the American Chemical Society·Mary Griffin KroneJoan-Emma Shea
Feb 12, 2009·Journal of the American Chemical Society·Peng XiuHaiping Fang
Jul 10, 2009·Journal of the American Chemical Society·Luyuan ZhangDongping Zhong
Apr 21, 2006·The Journal of Physical Chemistry. B·Niharendu Choudhury, B Montgomery Pettitt
Sep 22, 2006·The Journal of Physical Chemistry. B·Pu LiuB J Berne
Jul 5, 2007·The Journal of Physical Chemistry. B·Lan HuaBruce J Berne
Jul 14, 2007·The Journal of Physical Chemistry. B·Parimal KarSiegfried Höfinger
May 7, 2010·The Journal of Physical Chemistry. B·Lingle WangB J Berne
Jan 21, 2011·The Journal of Physical Chemistry. a·Soohaeng Yoo, Sotiris S Xantheas
Jan 13, 2012·The Journal of Physical Chemistry. B·Amish J PatelShekhar Garde
Apr 20, 2012·The Journal of Physical Chemistry. B·Payel Das, Silvina Matysiak
Jul 25, 2012·The Journal of Physical Chemistry. B·Santiago Romero-Vargas CastrillónPablo G Debenedetti
Oct 19, 2012·The Journal of Physical Chemistry. B·Sumit Sharma, Pablo G Debenedetti
Jul 16, 2008·The Journal of Physical Chemistry. B·Christopher V KellyIoan Andricioaei
Jan 12, 2010·The Journal of Physical Chemistry. B·Amish J PatelDavid Chandler
Mar 31, 2011·Nature Communications·Mazen AhmadVolkhard Helms
Dec 1, 2006·Physical Chemistry Chemical Physics : PCCP·Reema MahajanSiegfried Höfinger
Oct 24, 2009·Physical Chemistry Chemical Physics : PCCP·Rongzheng WanHaiping Fang
Sep 17, 2011·Physical Chemistry Chemical Physics : PCCP·Jihang WangAlenka Luzar
Feb 20, 2013·Physical Chemistry Chemical Physics : PCCP·Anna Kuffel, Jan Zielkiewicz
Feb 13, 2008·Proceedings of the National Academy of Sciences of the United States of America·Nicolas GiovambattistaPablo G Debenedetti
Dec 17, 2008·Proceedings of the National Academy of Sciences of the United States of America·Jeetain Mittal, Gerhard Hummer
Oct 10, 2009·Proceedings of the National Academy of Sciences of the United States of America·Yusong TuHaiping Fang
Aug 27, 2009·Proceedings of the National Academy of Sciences of the United States of America·Rahul GodawatShekhar Garde
Jul 22, 2009·Proceedings of the National Academy of Sciences of the United States of America·P N PereraDor Ben-Amotz
Nov 26, 2010·Proceedings of the National Academy of Sciences of the United States of America·Govardhan ReddyD Thirumalai
Oct 27, 2010·Proceedings of the National Academy of Sciences of the United States of America·Jingyuan LiB J Berne
Oct 5, 2011·Proceedings of the National Academy of Sciences of the United States of America·Cuicui GeChunying Chen
Sep 14, 2011·Proceedings of the National Academy of Sciences of the United States of America·Isaac T S Li, Gilbert C Walker
Aug 17, 2011·Proceedings of the National Academy of Sciences of the United States of America·Gaurav Chopra, Michael Levitt
Mar 7, 2012·Proceedings of the National Academy of Sciences of the United States of America·Sumit Sharma, Pablo G Debenedetti
Apr 28, 2012·Proceedings of the National Academy of Sciences of the United States of America·Song-Ho Chong, Sihyun Ham
Nov 13, 2012·Proceedings of the National Academy of Sciences of the United States of America·Ludivine GuillemotÉlisabeth Charlaix

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

Proceedings of the National Academy of Sciences of the United States of America
Nicolas GiovambattistaPablo G Debenedetti
Journal of the American Chemical Society
Xin LiRuhong Zhou
The Journal of Physical Chemistry. B
Lan HuaBruce J Berne
Proceedings of the National Academy of Sciences of the United States of America
Pieter Rein ten Wolde, David Chandler
© 2021 Meta ULC. All rights reserved