Literature DB >> 22665776

Temperature dependence of protein folding kinetics in living cells.

Minghao Guo1, Yangfan Xu, Martin Gruebele.   

Abstract

We measure the stability and folding rate of a mutant of the enzyme phosphoglycerate kinase (PGK) inside bone tissue cells as a function of temperature from 38 to 48 °C. To facilitate measurement in individual living cells, we developed a rapid laser temperature stepping method capable of measuring complete thermal melts and kinetic traces in about two min. We find that this method yields improved thermal melts compared to heating a sample chamber or microscope stage. By comparing results for six cells with in vitro data, we show that the protein is stabilized by about 6 kJ/mole in the cytoplasm, but the temperature dependence of folding kinetics is similar to in vitro. The main difference is a slightly steeper temperature dependence of the folding rate in some cells that can be rationalized in terms of temperature-dependent crowding, local viscosity, or hydrophobicity. The observed rate coefficients can be fitted within measurement uncertainty by an effective two-state model, even though PGK folds by a multistate mechanism. We validate the effective two-state model with a three-state free energy landscape of PGK to illustrate that the effective fitting parameters can represent a more complex underlying free energy landscape.

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Year:  2012        PMID: 22665776      PMCID: PMC3497798          DOI: 10.1073/pnas.1201797109

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  28 in total

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Authors:  B van den Berg; R Wain; C M Dobson; R J Ellis
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2.  Observation of strange kinetics in protein folding.

Authors:  J Sabelko; J Ervin; M Gruebele
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3.  Absolute comparison of simulated and experimental protein-folding dynamics.

Authors:  Christopher D Snow; Houbi Nguyen; Vijay S Pande; Martin Gruebele
Journal:  Nature       Date:  2002-10-20       Impact factor: 49.962

4.  Tuning the heterogeneous early folding dynamics of phosphoglycerate kinase.

Authors:  Szabolcs Osváth; Jobiah J Sabelko; Martin Gruebele
Journal:  J Mol Biol       Date:  2003-10-10       Impact factor: 5.469

5.  FlgM gains structure in living cells.

Authors:  Matthew M Dedmon; Chetan N Patel; Gregory B Young; Gary J Pielak
Journal:  Proc Natl Acad Sci U S A       Date:  2002-09-23       Impact factor: 11.205

6.  How fast-folding proteins fold.

Authors:  Kresten Lindorff-Larsen; Stefano Piana; Ron O Dror; David E Shaw
Journal:  Science       Date:  2011-10-28       Impact factor: 47.728

7.  Pathways to a protein folding intermediate observed in a 1-microsecond simulation in aqueous solution.

Authors:  Y Duan; P A Kollman
Journal:  Science       Date:  1998-10-23       Impact factor: 47.728

Review 8.  Stability of protein structure and hydrophobic interaction.

Authors:  P L Privalov; S J Gill
Journal:  Adv Protein Chem       Date:  1988

9.  Funnels, pathways, and the energy landscape of protein folding: a synthesis.

Authors:  J D Bryngelson; J N Onuchic; N D Socci; P G Wolynes
Journal:  Proteins       Date:  1995-03

10.  Global analysis of protein expression in yeast.

Authors:  Sina Ghaemmaghami; Won-Ki Huh; Kiowa Bower; Russell W Howson; Archana Belle; Noah Dephoure; Erin K O'Shea; Jonathan S Weissman
Journal:  Nature       Date:  2003-10-16       Impact factor: 49.962

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  44 in total

1.  Thermodynamics of protein destabilization in live cells.

Authors:  Jens Danielsson; Xin Mu; Lisa Lang; Huabing Wang; Andres Binolfi; François-Xavier Theillet; Beata Bekei; Derek T Logan; Philipp Selenko; Håkan Wennerström; Mikael Oliveberg
Journal:  Proc Natl Acad Sci U S A       Date:  2015-09-21       Impact factor: 11.205

2.  Single-molecule spectroscopy of protein conformational dynamics in live eukaryotic cells.

Authors:  Iwo König; Arash Zarrine-Afsar; Mikayel Aznauryan; Andrea Soranno; Bengt Wunderlich; Fabian Dingfelder; Jakob C Stüber; Andreas Plückthun; Daniel Nettels; Benjamin Schuler
Journal:  Nat Methods       Date:  2015-07-06       Impact factor: 28.547

Review 3.  Characterizing proteins in their cellular environment: Examples of recent advances in quantitative fluorescence microscopy.

Authors:  Catherine A Royer
Journal:  Protein Sci       Date:  2019-05-22       Impact factor: 6.725

Review 4.  A cell is more than the sum of its (dilute) parts: A brief history of quinary structure.

Authors:  Rachel D Cohen; Gary J Pielak
Journal:  Protein Sci       Date:  2017-02-13       Impact factor: 6.725

5.  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

6.  Physicochemical code for quinary protein interactions in Escherichia coli.

Authors:  Xin Mu; Seongil Choi; Lisa Lang; David Mowray; Nikolay V Dokholyan; Jens Danielsson; Mikael Oliveberg
Journal:  Proc Natl Acad Sci U S A       Date:  2017-05-23       Impact factor: 11.205

Review 7.  Soft interactions and crowding.

Authors:  Mohona Sarkar; Conggang Li; Gary J Pielak
Journal:  Biophys Rev       Date:  2013-02-21

8.  Quinary interactions with an unfolded state ensemble.

Authors:  Rachel D Cohen; Gary J Pielak
Journal:  Protein Sci       Date:  2017-06-12       Impact factor: 6.725

9.  Unraveling the Mechanical Unfolding Pathways of a Multidomain Protein: Phosphoglycerate Kinase.

Authors:  Qing Li; Zackary N Scholl; Piotr E Marszalek
Journal:  Biophys J       Date:  2018-07-03       Impact factor: 4.033

Review 10.  Comparing protein folding in vitro and in vivo: foldability meets the fitness challenge.

Authors:  Karan S Hingorani; Lila M Gierasch
Journal:  Curr Opin Struct Biol       Date:  2014-01-14       Impact factor: 6.809

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