Literature DB >> 29939151

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

Margaret S Cheung1, Andrei G Gasic.   

Abstract

Proteins must fold and function in the immensely complex environment of a cell, i.e. the cytoplasm-this is far from the ideal test-tube setting of a dilute solution. Here we review the advances in protein folding and dynamics inside the cell. In developing principles of protein behavior in vivo, we also begin to understand the organization and dynamics of the cytoplasm, unifying the single protein scale with the many-protein architectures at the subcellular scale. Our group has significantly contributed to this frontier by characterizing the effect of macromolecular crowding on the distribution of protein conformations. Additionally, we provide a personal perspective on becoming a theoretical biological physicist in the era of interdisciplinary research that has been greatly influenced by Dr Kamal Shukla. We also share our view on the future direction of protein folding inside a cell.

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Year:  2018        PMID: 29939151      PMCID: PMC6868529          DOI: 10.1088/1478-3975/aaced2

Source DB:  PubMed          Journal:  Phys Biol        ISSN: 1478-3967            Impact factor:   2.583


  44 in total

1.  Fluidity of water confined to subnanometre films.

Authors:  U Raviv; P Laurat; J Klein
Journal:  Nature       Date:  2001-09-06       Impact factor: 49.962

2.  Structure, function, and folding of phosphoglycerate kinase are strongly perturbed by macromolecular crowding.

Authors:  Apratim Dhar; Antonios Samiotakis; Simon Ebbinghaus; Lea Nienhaus; Dirar Homouz; Martin Gruebele; Margaret S Cheung
Journal:  Proc Natl Acad Sci U S A       Date:  2010-10-04       Impact factor: 11.205

3.  A unified model of protein dynamics.

Authors:  Hans Frauenfelder; Guo Chen; Joel Berendzen; Paul W Fenimore; Helén Jansson; Benjamin H McMahon; Izabela R Stroe; Jan Swenson; Robert D Young
Journal:  Proc Natl Acad Sci U S A       Date:  2009-02-27       Impact factor: 11.205

4.  Quinary structure modulates protein stability in cells.

Authors:  William B Monteith; Rachel D Cohen; Austin E Smith; Emilio Guzman-Cisneros; Gary J Pielak
Journal:  Proc Natl Acad Sci U S A       Date:  2015-01-26       Impact factor: 11.205

5.  Explicit Incorporation of Hard and Soft Protein-Protein Interactions into Models for Crowding Effects in Protein Mixtures. 2. Effects of Varying Hard and Soft Interactions upon Prototypical Chemical Equilibria.

Authors:  Allen P Minton
Journal:  J Phys Chem B       Date:  2017-05-25       Impact factor: 2.991

6.  The extracellular protein VlsE is destabilized inside cells.

Authors:  Irisbel Guzman; Hannah Gelman; Jonathan Tai; Martin Gruebele
Journal:  J Mol Biol       Date:  2013-09-04       Impact factor: 5.469

7.  Markov modeling of peptide folding in the presence of protein crowders.

Authors:  Daniel Nilsson; Sandipan Mohanty; Anders Irbäck
Journal:  J Chem Phys       Date:  2018-02-07       Impact factor: 3.488

8.  Pressure effects on collective density fluctuations in water and protein solutions.

Authors:  Daniela Russo; Alessio Laloni; Alessandra Filabozzi; Matthias Heyden
Journal:  Proc Natl Acad Sci U S A       Date:  2017-10-09       Impact factor: 11.205

9.  Molecular evolution, intracellular organization, and the quinary structure of proteins.

Authors:  E H McConkey
Journal:  Proc Natl Acad Sci U S A       Date:  1982-05       Impact factor: 11.205

10.  A physics-based approach of coarse-graining the cytoplasm of Escherichia coli (CGCYTO).

Authors:  Qian Wang; Margaret S Cheung
Journal:  Biophys J       Date:  2012-05-15       Impact factor: 4.033

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  5 in total

1.  In-cell destabilization of a homodimeric protein complex detected by DEER spectroscopy.

Authors:  Yin Yang; Shen-Na Chen; Feng Yang; Xia-Yan Li; Akiva Feintuch; Xun-Cheng Su; Daniella Goldfarb
Journal:  Proc Natl Acad Sci U S A       Date:  2020-08-11       Impact factor: 11.205

2.  A Tale of Two Desolvation Potentials: An Investigation of Protein Behavior under High Hydrostatic Pressure.

Authors:  Andrei G Gasic; Margaret S Cheung
Journal:  J Phys Chem B       Date:  2020-02-24       Impact factor: 2.991

3.  Cleavage-Resistant Protein Labeling With Hydrophilic Trityl Enables Distance Measurements In-Cell.

Authors:  Zikri Hasanbasri; Kevin Singewald; Teresa D Gluth; Benoit Driesschaert; Sunil Saxena
Journal:  J Phys Chem B       Date:  2021-05-13       Impact factor: 3.466

4.  Macromolecular Crowding Tunes Protein Stability by Manipulating Solvent Accessibility.

Authors:  Birgit Köhn; Michael Kovermann
Journal:  Chembiochem       Date:  2019-02-11       Impact factor: 3.164

5.  Studying protein folding in health and disease using biophysical approaches.

Authors:  Hong Zhang; Weibin Gong; Si Wu; Sarah Perrett
Journal:  Emerg Top Life Sci       Date:  2021-05-14
  5 in total

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