Literature DB >> 20308583

Out-of-equilibrium conformational cycling of GroEL under saturating ATP concentrations.

Gabriel A Frank1, Mila Goomanovsky, Amit Davidi, Guy Ziv, Amnon Horovitz, Gilad Haran.   

Abstract

The molecular chaperone GroEL exists in at least two allosteric states, T and R, that interconvert in an ATP-controlled manner. Thermodynamic analysis suggests that the T-state population becomes negligible with increasing ATP concentrations, in conflict with the requirement for conformational cycling, which is essential for the operation of molecular machines. To solve this conundrum, we performed fluorescence correlation spectroscopy on the single-ring version of GroEL, using a fluorescent switch recently built into its structure, which turns "on," i.e., increases its fluorescence dramatically, when ATP is added. A series of correlation functions was measured as a function of ATP concentration and analyzed using singular-value decomposition. The analysis assigned the signal to two states whose dynamics clearly differ. Surprisingly, even at ATP saturation, approximately 50% of the molecules still populate the T state at any instance of time, indicating constant out-of-equilibrium cycling between T and R. Only upon addition of the cochaperonin GroES does the T-state population vanish. Our results suggest a model in which the T/R ratio is controlled by the rate of ADP release after hydrolysis, which can be determined accordingly.

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Year:  2010        PMID: 20308583      PMCID: PMC2852005          DOI: 10.1073/pnas.0910246107

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


  23 in total

1.  A kinetic analysis of the nucleotide-induced allosteric transitions of GroEL.

Authors:  M J Cliff; N M Kad; N Hay; P A Lund; M R Webb; S G Burston; A R Clarke
Journal:  J Mol Biol       Date:  1999-10-29       Impact factor: 5.469

2.  ATP-bound states of GroEL captured by cryo-electron microscopy.

Authors:  N A Ranson; G W Farr; A M Roseman; B Gowen; W A Fenton; A L Horwich; H R Saibil
Journal:  Cell       Date:  2001-12-28       Impact factor: 41.582

3.  Nucleotide binding to the chaperonin GroEL: non-cooperative binding of ATP analogs and ADP, and cooperative effect of ATP.

Authors:  T Inobe; T Makio; E Takasu-Ishikawa; T P Terada; K Kuwajima
Journal:  Biochim Biophys Acta       Date:  2001-02-09

Review 4.  Converging concepts of protein folding in vitro and in vivo.

Authors:  F Ulrich Hartl; Manajit Hayer-Hartl
Journal:  Nat Struct Mol Biol       Date:  2009-06       Impact factor: 15.369

5.  Fluorescence correlation spectroscopy. II. An experimental realization.

Authors:  D Magde; E L Elson; W W Webb
Journal:  Biopolymers       Date:  1974-01       Impact factor: 2.505

6.  The crystal structure of the bacterial chaperonin GroEL at 2.8 A.

Authors:  K Braig; Z Otwinowski; R Hegde; D C Boisvert; A Joachimiak; A L Horwich; P B Sigler
Journal:  Nature       Date:  1994-10-13       Impact factor: 49.962

Review 7.  Review: allostery in chaperonins.

Authors:  A Horovitz; Y Fridmann; G Kafri; O Yifrach
Journal:  J Struct Biol       Date:  2001-08       Impact factor: 2.867

8.  A kinetic analysis of the nucleotide-induced allosteric transitions in a single-ring mutant of GroEL.

Authors:  Daniel Poso; Anthony R Clarke; Steven G Burston
Journal:  J Mol Biol       Date:  2004-05-14       Impact factor: 5.469

9.  Kinetic analysis of ATP-dependent inter-ring communication in GroEL.

Authors:  Amnon Amir; Amnon Horovitz
Journal:  J Mol Biol       Date:  2004-05-14       Impact factor: 5.469

Review 10.  The kinetic mechanism of kinesin.

Authors:  Robert A Cross
Journal:  Trends Biochem Sci       Date:  2004-06       Impact factor: 13.807

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  8 in total

1.  Single-molecule spectroscopy of protein folding in a chaperonin cage.

Authors:  Hagen Hofmann; Frank Hillger; Shawn H Pfeil; Armin Hoffmann; Daniel Streich; Dominik Haenni; Daniel Nettels; Everett A Lipman; Benjamin Schuler
Journal:  Proc Natl Acad Sci U S A       Date:  2010-06-14       Impact factor: 11.205

2.  Crystal structure of a GroEL-ADP complex in the relaxed allosteric state at 2.7 Å resolution.

Authors:  Xue Fei; Dong Yang; Nicole LaRonde-LeBlanc; George H Lorimer
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-16       Impact factor: 11.205

3.  Substrate protein switches GroE chaperonins from asymmetric to symmetric cycling by catalyzing nucleotide exchange.

Authors:  Xiang Ye; George H Lorimer
Journal:  Proc Natl Acad Sci U S A       Date:  2013-10-28       Impact factor: 11.205

4.  Tracking Equilibrium and Nonequilibrium Shifts in Data with TREND.

Authors:  Jia Xu; Steven R Van Doren
Journal:  Biophys J       Date:  2017-01-24       Impact factor: 4.033

5.  Molecular chaperones maximize the native state yield on biological times by driving substrates out of equilibrium.

Authors:  Shaon Chakrabarti; Changbong Hyeon; Xiang Ye; George H Lorimer; D Thirumalai
Journal:  Proc Natl Acad Sci U S A       Date:  2017-12-07       Impact factor: 11.205

6.  Visualizing GroEL/ES in the act of encapsulating a folding protein.

Authors:  Dong-Hua Chen; Damian Madan; Jeremy Weaver; Zong Lin; Gunnar F Schröder; Wah Chiu; Hays S Rye
Journal:  Cell       Date:  2013-06-06       Impact factor: 41.582

7.  Biomolecular robotics for chemomechanically driven guest delivery fuelled by intracellular ATP.

Authors:  Shuvendu Biswas; Kazushi Kinbara; Tatsuya Niwa; Hideki Taguchi; Noriyuki Ishii; Sumiyo Watanabe; Kanjiro Miyata; Kazunori Kataoka; Takuzo Aida
Journal:  Nat Chem       Date:  2013-06-02       Impact factor: 24.427

8.  Conformational sampling and nucleotide-dependent transitions of the GroEL subunit probed by unbiased molecular dynamics simulations.

Authors:  Lars Skjaerven; Barry Grant; Arturo Muga; Knut Teigen; J Andrew McCammon; Nathalie Reuter; Aurora Martinez
Journal:  PLoS Comput Biol       Date:  2011-03-10       Impact factor: 4.475

  8 in total

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