Structural and thermodynamic analyses of the β-to-α transformation in RfaH reveal principles of fold-switching proteins

  1. Philipp K Zuber
  2. Tina Daviter
  3. Ramona Heißmann
  4. Ulrike Persau
  5. Kristian Schweimer
  6. Stefan H Knauer  Is a corresponding author
  1. University of Bayreuth, Germany
  2. The Institute of Cancer Research, United Kingdom

Abstract

The two-domain protein RfaH, a paralog of the universally conserved NusG/Spt5 transcription factors, is regulated by autoinhibition coupled to the reversible conformational switch of its 60-residue C-terminal KOW domain between an α-hairpin and a β-barrel. In contrast, NusG/Spt5-KOW domains only occur in the β-barrel state. To understand the principles underlying the drastic fold switch in RfaH, we elucidated the thermodynamic stability and the structural dynamics of two RfaH- and four NusG/Spt5-KOW domains by combining biophysical and structural biology methods. We find that the RfaH-KOW β-barrel is thermodynamically less stable than that of most NusG/Spt5-KOWs and we show that it is in equilibrium with a globally unfolded species, which, strikingly, contains two helical regions that prime the transition towards the α-hairpin. Our results suggest that transiently structured elements in the unfolded conformation might drive the global folding transition in metamorphic proteins in general.

Data availability

Coordinates for VcRfaH-KOW have been deposited to the Protein Databank (ID: 6TF4). Chemical shifts have been deposited in the Biological Magnetic Resonance Databank under the following accession numbers: #28039 (hSpt5-KOW5), #28040 (MjSpt5-KOW), #28041 (VcRfaH) and #34450 (VcRfaH-CTD). Source data files have been provided for Figures 2, 3, 5, and 6

Article and author information

Author details

  1. Philipp K Zuber

    Biochemistry IV - Biophysical Chemistry, University of Bayreuth, Bayreuth, Germany
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0001-5139-3930
  2. Tina Daviter

    The Institute of Cancer Research, London, United Kingdom
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0003-2636-5959
  3. Ramona Heißmann

    Biochemistry IV - Biophysical Chemistry, University of Bayreuth, Bayreuth, Germany
    Competing interests
    The authors declare that no competing interests exist.
  4. Ulrike Persau

    Biochemistry IV - Biophysical Chemistry, University of Bayreuth, Bayreuth, Germany
    Competing interests
    The authors declare that no competing interests exist.
  5. Kristian Schweimer

    Biochemistry IV - Biophysical Chemistry, University of Bayreuth, Bayreuth, Germany
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0002-3837-8442
  6. Stefan H Knauer

    Biochemistry IV - Biophysical Chemistry, University of Bayreuth, Bayreuth, Germany
    For correspondence
    stefan.knauer@uni-bayreuth.de
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0002-4143-0694

Funding

European Cooperation in Science and Technology (CA15126)

  • Philipp K Zuber

The COST action funded PKZ's research stay to conduct DSC experiments at the Birkbeck UCL, UK.A DFG grant (to Paul Rösch, former head of department) funded PKZ's position and parts of the research material.

Reviewing Editor

  1. Rina Rosenzweig, Weizmann Institute of Science, Israel

Version history

  1. Received: December 23, 2021
  2. Preprint posted: January 15, 2022 (view preprint)
  3. Accepted: October 13, 2022
  4. Accepted Manuscript published: October 18, 2022 (version 1)
  5. Version of Record published: November 23, 2022 (version 2)

Copyright

© 2022, Zuber et al.

This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.

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  1. Philipp K Zuber
  2. Tina Daviter
  3. Ramona Heißmann
  4. Ulrike Persau
  5. Kristian Schweimer
  6. Stefan H Knauer
(2022)
Structural and thermodynamic analyses of the β-to-α transformation in RfaH reveal principles of fold-switching proteins
eLife 11:e76630.
https://doi.org/10.7554/eLife.76630

Share this article

https://doi.org/10.7554/eLife.76630

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