Literature DB >> 26266732

Biomolecular Crowding Arising from Small Molecules, Molecular Constraints, Surface Packing, and Nano-Confinement.

Mary Rose Hilaire1, Rachel M Abaskharon1, Feng Gai1.   

Abstract

The effect of macromolecular crowding on the structure, dynamics, and reactivity of biomolecules is well established and the relevant research has been extensively reviewed. Herein, we focus our discussion on crowding effects arising from small cosolvent molecules and densely packed surface conditions. In addition, we highlight recent efforts that capitalize on the excluded volume effect for various tailored biochemical and biophysical applications. Specifically, we discuss how a targeted increase in local mass density can be exploited to gain insight into the folding dynamics of the protein of interest and how confinement via reverse micelles can be used to study a range of biophysical questions, from protein hydration dynamics to amyloid formation.

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Year:  2015        PMID: 26266732      PMCID: PMC4610718          DOI: 10.1021/acs.jpclett.5b00957

Source DB:  PubMed          Journal:  J Phys Chem Lett        ISSN: 1948-7185            Impact factor:   6.475


  75 in total

1.  Nonlinear sorting, curvature generation, and crowding of endophilin N-BAR on tubular membranes.

Authors:  Chen Zhu; Sovan L Das; Tobias Baumgart
Journal:  Biophys J       Date:  2012-04-18       Impact factor: 4.033

2.  Bulky side chains and non-native salt bridges slow down the folding of a cross-linked helical peptide: a combined molecular dynamics and time-resolved infrared spectroscopy study.

Authors:  Beatrice Paoli; Michele Seeber; Ellen H G Backus; Janne A Ihalainen; Peter Hamm; Amedeo Caflisch
Journal:  J Phys Chem B       Date:  2009-04-02       Impact factor: 2.991

3.  Collapse of unfolded proteins in a mixture of denaturants.

Authors:  Zhen Xia; Payel Das; Eugene I Shakhnovich; Ruhong Zhou
Journal:  J Am Chem Soc       Date:  2012-10-24       Impact factor: 15.419

4.  Correlating enzyme density, conformation and activity on nanoparticle surfaces in highly functional bio-nanocomposites.

Authors:  Bedabrata Saha; Jiban Saikia; Gopal Das
Journal:  Analyst       Date:  2015-01-21       Impact factor: 4.616

5.  Conformational dynamics and stability of HP35 studied with 2D IR vibrational echoes.

Authors:  Jean K Chung; Megan C Thielges; Michael D Fayer
Journal:  J Am Chem Soc       Date:  2012-07-16       Impact factor: 15.419

Review 6.  Water in a crowd.

Authors:  Michael D Fayer
Journal:  Physiology (Bethesda)       Date:  2011-12

7.  Slow folding of cross-linked alpha-helical peptides due to steric hindrance.

Authors:  B Paoli; R Pellarin; A Caflisch
Journal:  J Phys Chem B       Date:  2010-02-11       Impact factor: 2.991

8.  Factor defining the effects of glycine betaine on the thermodynamic stability and internal dynamics of horse cytochrome C.

Authors:  Rishu Jain; Deepak Sharma; Sandeep Kumar; Rajesh Kumar
Journal:  Biochemistry       Date:  2014-08-11       Impact factor: 3.162

9.  Entropic tension in crowded membranes.

Authors:  Martin Lindén; Pierre Sens; Rob Phillips
Journal:  PLoS Comput Biol       Date:  2012-03-15       Impact factor: 4.475

Review 10.  Formation of protein complexes in crowded environments--from in vitro to in vivo.

Authors:  Yael Phillip; Gideon Schreiber
Journal:  FEBS Lett       Date:  2013-01-18       Impact factor: 4.124

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  3 in total

Review 1.  Meandering Down the Energy Landscape of Protein Folding: Are We There Yet?

Authors:  Rachel M Abaskharon; Feng Gai
Journal:  Biophys J       Date:  2016-05-10       Impact factor: 4.033

2.  Do guanidinium and tetrapropylammonium ions specifically interact with aromatic amino acid side chains?

Authors:  Bei Ding; Debopreeti Mukherjee; Jianxin Chen; Feng Gai
Journal:  Proc Natl Acad Sci U S A       Date:  2017-01-17       Impact factor: 11.205

3.  C≡N stretching vibration of 5-cyanotryptophan as an infrared probe of protein local environment: what determines its frequency?

Authors:  Wenkai Zhang; Beatrice N Markiewicz; Rosalie S Doerksen; Amos B Smith; Feng Gai
Journal:  Phys Chem Chem Phys       Date:  2016-03-14       Impact factor: 3.676

  3 in total

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