Literature DB >> 31911439

The (un)structural biology of biomolecular liquid-liquid phase separation using NMR spectroscopy.

Anastasia C Murthy1, Nicolas L Fawzi2.   

Abstract

Liquid-liquid phase separation (LLPS) of proteins and nucleic acids is a phenomenon that underlies membraneless compartmentalization of the cell. The underlying molecular interactions that underpin biomolecular LLPS have been of increased interest due to the importance of membraneless organelles in facilitating various biological processes and the disease association of several of the proteins that mediate LLPS. Proteins that are able to undergo LLPS often contain intrinsically disordered regions and remain dynamic in solution. Solution-state NMR spectroscopy has emerged as a leading structural technique to characterize protein LLPS due to the variety and specificity of information that can be obtained about intrinsically disordered sequences. This review discusses practical aspects of studying LLPS by NMR, summarizes recent work on the molecular aspects of LLPS of various protein systems, and discusses future opportunities for characterizing the molecular details of LLPS to modulate phase separation.
© 2020 Murthy and Fawzi.

Keywords:  RNA-binding proteins; heterogeneous nuclear ribonucleoprotein (hnRNP); intrinsically disordered protein; liquid-liquid phase separation; nuclear magnetic resonance (NMR); protein-protein interaction; structural biology

Mesh:

Substances:

Year:  2020        PMID: 31911439      PMCID: PMC7039561          DOI: 10.1074/jbc.REV119.009847

Source DB:  PubMed          Journal:  J Biol Chem        ISSN: 0021-9258            Impact factor:   5.157


  52 in total

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Authors:  André C Dumetz; Aaron M Chockla; Eric W Kaler; Abraham M Lenhoff
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3.  Probing the transient dark state of substrate binding to GroEL by relaxation-based solution NMR.

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4.  Heterochromatin Protein HP1α Gelation Dynamics Revealed by Solid-State NMR Spectroscopy.

Authors:  Bryce E Ackermann; Galia T Debelouchina
Journal:  Angew Chem Int Ed Engl       Date:  2019-04-03       Impact factor: 15.336

5.  Nuclear Import Receptor Inhibits Phase Separation of FUS through Binding to Multiple Sites.

Authors:  Takuya Yoshizawa; Rustam Ali; Jenny Jiou; Ho Yee Joyce Fung; Kathleen A Burke; Seung Joong Kim; Yuan Lin; William B Peeples; Daniel Saltzberg; Michael Soniat; Jordan M Baumhardt; Rudolf Oldenbourg; Andrej Sali; Nicolas L Fawzi; Michael K Rosen; Yuh Min Chook
Journal:  Cell       Date:  2018-04-19       Impact factor: 41.582

6.  Mechanistic View of hnRNPA2 Low-Complexity Domain Structure, Interactions, and Phase Separation Altered by Mutation and Arginine Methylation.

Authors:  Veronica H Ryan; Gregory L Dignon; Gül H Zerze; Charlene V Chabata; Rute Silva; Alexander E Conicella; Joshua Amaya; Kathleen A Burke; Jeetain Mittal; Nicolas L Fawzi
Journal:  Mol Cell       Date:  2018-01-18       Impact factor: 17.970

7.  Proline cis-trans isomerization controls autoinhibition of a signaling protein.

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8.  Nucleophosmin integrates within the nucleolus via multi-modal interactions with proteins displaying R-rich linear motifs and rRNA.

Authors:  Diana M Mitrea; Jaclyn A Cika; Clifford S Guy; David Ban; Priya R Banerjee; Christopher B Stanley; Amanda Nourse; Ashok A Deniz; Richard W Kriwacki
Journal:  Elife       Date:  2016-02-02       Impact factor: 8.140

9.  Residue-specific identification of phase separation hot spots of Alzheimer's-related protein tau.

Authors:  Susmitha Ambadipudi; Jithender G Reddy; Jacek Biernat; Eckhard Mandelkow; Markus Zweckstetter
Journal:  Chem Sci       Date:  2019-05-22       Impact factor: 9.825

Review 10.  Evaluating phase separation in live cells: diagnosis, caveats, and functional consequences.

Authors:  David T McSwiggen; Mustafa Mir; Xavier Darzacq; Robert Tjian
Journal:  Genes Dev       Date:  2019-10-08       Impact factor: 11.361

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Authors:  Keith J Fritzsching; Yizhuo Yang; Emily M Pogue; Joseph B Rayman; Eric R Kandel; Ann E McDermott
Journal:  Proc Natl Acad Sci U S A       Date:  2020-11-30       Impact factor: 11.205

Review 2.  Methods to Study Phase-Separated Condensates and the Underlying Molecular Interactions.

Authors:  Laura R Ganser; Sua Myong
Journal:  Trends Biochem Sci       Date:  2020-06-16       Impact factor: 13.807

Review 3.  Biomolecular condensates at the nexus of cellular stress, protein aggregation disease and ageing.

Authors:  Simon Alberti; Anthony A Hyman
Journal:  Nat Rev Mol Cell Biol       Date:  2021-01-28       Impact factor: 94.444

Review 4.  Conformational Dynamics of Intrinsically Disordered Proteins Regulate Biomolecular Condensate Chemistry.

Authors:  Anton Abyzov; Martin Blackledge; Markus Zweckstetter
Journal:  Chem Rev       Date:  2022-02-18       Impact factor: 60.622

5.  Molecular interactions contributing to FUS SYGQ LC-RGG phase separation and co-partitioning with RNA polymerase II heptads.

Authors:  Wai Shing Tang; Nina Jovic; Anastasia C Murthy; Abigail M Janke; Da Hee Seo; Theodora Myrto Perdikari; Jeetain Mittal; Nicolas L Fawzi
Journal:  Nat Struct Mol Biol       Date:  2021-11-10       Impact factor: 15.369

Review 6.  Conformational Freedom and Topological Confinement of Proteins in Biomolecular Condensates.

Authors:  Daniel Scholl; Ashok A Deniz
Journal:  J Mol Biol       Date:  2021-11-09       Impact factor: 5.469

7.  Molecular mechanisms of eukaryotic origin initiation, replication fork progression, and chromatin maintenance.

Authors:  Zuanning Yuan; Huilin Li
Journal:  Biochem J       Date:  2020-09-30       Impact factor: 3.857

8.  NMR and EPR reveal a compaction of the RNA-binding protein FUS upon droplet formation.

Authors:  Leonidas Emmanouilidis; Laura Esteban-Hofer; Fred F Damberger; Tebbe de Vries; Cristina K X Nguyen; Luis Fábregas Ibáñez; Simon Mergenthal; Enrico Klotzsch; Maxim Yulikov; Gunnar Jeschke; Frédéric H-T Allain
Journal:  Nat Chem Biol       Date:  2021-03-08       Impact factor: 15.040

9.  The key role of solvent in condensation: Mapping water in liquid-liquid phase-separated FUS.

Authors:  Jonas Ahlers; Ellen M Adams; Verian Bader; Simone Pezzotti; Konstanze F Winklhofer; Jörg Tatzelt; Martina Havenith
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Review 10.  Liquid-liquid phase separation of tau: From molecular biophysics to physiology and disease.

Authors:  Sandeep K Rai; Adriana Savastano; Priyanka Singh; Samrat Mukhopadhyay; Markus Zweckstetter
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