Literature DB >> 25723249

Effects of macromolecular crowding on the collapse of biopolymers.

Hongsuk Kang1, Philip A Pincus2, Changbong Hyeon3, D Thirumalai1.   

Abstract

Experiments show that macromolecular crowding modestly reduces the size of intrinsically disordered proteins even at a volume fraction (ϕ) similar to that in the cytosol, whereas DNA undergoes a coil-to-globule transition at very small ϕ. We show using a combination of scaling arguments and simulations that the polymer size R̅(g)(ϕ) depends on x=R̅(g)(0)/D, where D is the ϕ-dependent distance between the crowders. If x≲O(1), there is only a small decrease in R̅(g)(ϕ) as ϕ increases. When x≫O(1), a cooperative coil-to-globule transition is induced. Our theory quantitatively explains a number of experiments.

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Year:  2015        PMID: 25723249     DOI: 10.1103/PhysRevLett.114.068303

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  21 in total

1.  Crowding-Induced Elongated Conformation of Urea-Unfolded Apoazurin: Investigating the Role of Crowder Shape in Silico.

Authors:  Fabio C Zegarra; Dirar Homouz; Andrei G Gasic; Lucas Babel; Michael Kovermann; Pernilla Wittung-Stafshede; Margaret S Cheung
Journal:  J Phys Chem B       Date:  2019-04-23       Impact factor: 2.991

Review 2.  Features of molecular recognition of intrinsically disordered proteins via coupled folding and binding.

Authors:  Jing Yang; Meng Gao; Junwen Xiong; Zhengding Su; Yongqi Huang
Journal:  Protein Sci       Date:  2019-09-04       Impact factor: 6.725

3.  Design and Properties of Genetically Encoded Probes for Sensing Macromolecular Crowding.

Authors:  Boqun Liu; Christoffer Åberg; Floris J van Eerden; Siewert J Marrink; Bert Poolman; Arnold J Boersma
Journal:  Biophys J       Date:  2017-05-09       Impact factor: 4.033

Review 4.  Towards developing principles of protein folding and dynamics in the cell.

Authors:  Margaret S Cheung; Andrei G Gasic
Journal:  Phys Biol       Date:  2018-07-30       Impact factor: 2.583

5.  Atomistic Modeling of Intrinsically Disordered Proteins Under Polyethylene Glycol Crowding: Quantitative Comparison with Experimental Data and Implication of Protein-Crowder Attraction.

Authors:  Valery Nguemaha; Sanbo Qin; Huan-Xiang Zhou
Journal:  J Phys Chem B       Date:  2018-10-03       Impact factor: 2.991

6.  Macromolecular crowding induces compaction and DNA binding in the disordered N-terminal domain of hUNG2.

Authors:  Gaddiel Rodriguez; Benjamin Orris; Ananya Majumdar; Shridhar Bhat; James T Stivers
Journal:  DNA Repair (Amst)       Date:  2019-12-10

7.  Protein Composition Determines the Effect of Crowding on the Properties of Disordered Proteins.

Authors:  Cayla M Miller; Young C Kim; Jeetain Mittal
Journal:  Biophys J       Date:  2016-07-12       Impact factor: 4.033

Review 8.  Whole-Cell Models and Simulations in Molecular Detail.

Authors:  Michael Feig; Yuji Sugita
Journal:  Annu Rev Cell Dev Biol       Date:  2019-07-12       Impact factor: 13.827

9.  Compaction of Single-Molecule Megabase-Long Chromatin under the Influence of Macromolecular Crowding.

Authors:  Anatoly Zinchenko; Nikolay V Berezhnoy; Qinming Chen; Lars Nordenskiöld
Journal:  Biophys J       Date:  2018-05-03       Impact factor: 4.033

10.  Folding propensity of intrinsically disordered proteins by osmotic stress.

Authors:  Amanda L Mansouri; Laura N Grese; Erica L Rowe; James C Pino; S Chakra Chennubhotla; Arvind Ramanathan; Hugh M O'Neill; Valerie Berthelier; Christopher B Stanley
Journal:  Mol Biosyst       Date:  2016-11-15
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