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Solutes unmask differences in clustering versus phase separation of FET proteins

Author

Listed:
  • Mrityunjoy Kar

    (Max Planck Institute of Cell Biology and Genetics)

  • Laura T. Vogel

    (Heinrich Heine University)

  • Gaurav Chauhan

    (Washington University in St. Louis)

  • Suren Felekyan

    (Heinrich Heine University)

  • Hannes Ausserwöger

    (University of Cambridge)

  • Timothy J. Welsh

    (University of Cambridge)

  • Furqan Dar

    (Washington University in St. Louis)

  • Anjana R. Kamath

    (Max Planck Institute of Cell Biology and Genetics)

  • Tuomas P. J. Knowles

    (University of Cambridge)

  • Anthony A. Hyman

    (Max Planck Institute of Cell Biology and Genetics)

  • Claus A. M. Seidel

    (Heinrich Heine University)

  • Rohit V. Pappu

    (Washington University in St. Louis)

Abstract

Phase separation and percolation contribute to phase transitions of multivalent macromolecules. Contributions of percolation are evident through the viscoelasticity of condensates and through the formation of heterogeneous distributions of nano- and mesoscale pre-percolation clusters in sub-saturated solutions. Here, we show that clusters formed in sub-saturated solutions of FET (FUS-EWSR1-TAF15) proteins are affected differently by glutamate versus chloride. These differences on the nanoscale, gleaned using a suite of methods deployed across a wide range of protein concentrations, are prevalent and can be unmasked even though the driving forces for phase separation remain unchanged in glutamate versus chloride. Strikingly, differences in anion-mediated interactions that drive clustering saturate on the micron-scale. Beyond this length scale the system separates into coexisting phases. Overall, we find that sequence-encoded interactions, mediated by solution components, make synergistic and distinct contributions to the formation of pre-percolation clusters in sub-saturated solutions, and to the driving forces for phase separation.

Suggested Citation

  • Mrityunjoy Kar & Laura T. Vogel & Gaurav Chauhan & Suren Felekyan & Hannes Ausserwöger & Timothy J. Welsh & Furqan Dar & Anjana R. Kamath & Tuomas P. J. Knowles & Anthony A. Hyman & Claus A. M. Seidel, 2024. "Solutes unmask differences in clustering versus phase separation of FET proteins," Nature Communications, Nature, vol. 15(1), pages 1-21, December.
  • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-48775-3
    DOI: 10.1038/s41467-024-48775-3
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    References listed on IDEAS

    as
    1. Mina Farag & Wade M. Borcherds & Anne Bremer & Tanja Mittag & Rohit V. Pappu, 2023. "Phase separation of protein mixtures is driven by the interplay of homotypic and heterotypic interactions," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
    2. Chenyang Lan & Juhyeong Kim & Svenja Ulferts & Fernando Aprile-Garcia & Sophie Weyrauch & Abhinaya Anandamurugan & Robert Grosse & Ritwick Sawarkar & Aleks Reinhardt & Thorsten Hugel, 2023. "Quantitative real-time in-cell imaging reveals heterogeneous clusters of proteins prior to condensation," Nature Communications, Nature, vol. 14(1), pages 1-8, December.
    3. Ibraheem Alshareedah & Mahdi Muhammad Moosa & Matthew Pham & Davit A. Potoyan & Priya R. Banerjee, 2021. "Programmable viscoelasticity in protein-RNA condensates with disordered sticker-spacer polypeptides," Nature Communications, Nature, vol. 12(1), pages 1-14, December.
    4. Georg Krainer & Kadi L. Saar & William E. Arter & Timothy J. Welsh & Magdalena A. Czekalska & Raphaël P. B. Jacquat & Quentin Peter & Walther C. Traberg & Arvind Pujari & Akhila K. Jayaram & Pavankuma, 2023. "Direct digital sensing of protein biomarkers in solution," Nature Communications, Nature, vol. 14(1), pages 1-21, December.
    5. Richoo B. Davis & Anushka Supakar & Aishwarya Kanchi Ranganath & Mahdi Muhammad Moosa & Priya R. Banerjee, 2024. "Heterotypic interactions can drive selective co-condensation of prion-like low-complexity domains of FET proteins and mammalian SWI/SNF complex," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    6. Pilong Li & Sudeep Banjade & Hui-Chun Cheng & Soyeon Kim & Baoyu Chen & Liang Guo & Marc Llaguno & Javoris V. Hollingsworth & David S. King & Salman F. Banani & Paul S. Russo & Qiu-Xing Jiang & B. Tra, 2012. "Phase transitions in the assembly of multivalent signalling proteins," Nature, Nature, vol. 483(7389), pages 336-340, March.
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