Literature DB >> 28483149

Phase Separation and Single-Chain Compactness of Charged Disordered Proteins Are Strongly Correlated.

Yi-Hsuan Lin1, Hue Sun Chan2.   

Abstract

Liquid-liquid phase separation of intrinsically disordered proteins (IDPs) is a major undergirding factor in the regulated formation of membraneless organelles in the cell. The phase behavior of an IDP is sensitive to its amino acid sequence. Here we apply a recent random-phase-approximation polymer theory to investigate how the tendency for multiple chains of a protein to phase-separate, as characterized by the critical temperature T∗cr, is related to the protein's single-chain average radius of gyration 〈Rg〉. For a set of sequences containing different permutations of an equal number of positively and negatively charged residues, we found a striking correlation T∗cr ∼ 〈Rg〉-γ with γ as large as ∼6.0, indicating that electrostatic effects have similarly significant impact on promoting single-chain conformational compactness and phase separation. Moreover, T∗cr ∝ -SCD, where SCD is a recently proposed "sequence charge decoration" parameter determined solely by sequence information. Ramifications of our findings for deciphering the sequence dependence of IDP phase separation are discussed.
Copyright © 2017 Biophysical Society. Published by Elsevier Inc. All rights reserved.

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Year:  2017        PMID: 28483149      PMCID: PMC5448239          DOI: 10.1016/j.bpj.2017.04.021

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  28 in total

1.  Net charge per residue modulates conformational ensembles of intrinsically disordered proteins.

Authors:  Albert H Mao; Scott L Crick; Andreas Vitalis; Caitlin L Chicoine; Rohit V Pappu
Journal:  Proc Natl Acad Sci U S A       Date:  2010-04-19       Impact factor: 11.205

2.  Polyelectrostatic interactions of disordered ligands suggest a physical basis for ultrasensitivity.

Authors:  Mikael Borg; Tanja Mittag; Tony Pawson; Mike Tyers; Julie D Forman-Kay; Hue Sun Chan
Journal:  Proc Natl Acad Sci U S A       Date:  2007-05-23       Impact factor: 11.205

3.  From sequence and forces to structure, function, and evolution of intrinsically disordered proteins.

Authors:  Julie D Forman-Kay; Tanja Mittag
Journal:  Structure       Date:  2013-09-03       Impact factor: 5.006

Review 4.  Theoretical perspectives on nonnative interactions and intrinsic disorder in protein folding and binding.

Authors:  Tao Chen; Jianhui Song; Hue Sun Chan
Journal:  Curr Opin Struct Biol       Date:  2014-12-24       Impact factor: 6.809

Review 5.  Mechanisms and Consequences of Macromolecular Phase Separation.

Authors:  Louis-Philippe Bergeron-Sandoval; Nozhat Safaee; Stephen W Michnick
Journal:  Cell       Date:  2016-05-19       Impact factor: 41.582

6.  Phase Transition in Postsynaptic Densities Underlies Formation of Synaptic Complexes and Synaptic Plasticity.

Authors:  Menglong Zeng; Yuan Shang; Yoichi Araki; Tingfeng Guo; Richard L Huganir; Mingjie Zhang
Journal:  Cell       Date:  2016-08-25       Impact factor: 41.582

7.  The effect of intrachain electrostatic repulsion on conformational disorder and dynamics of the Sic1 protein.

Authors:  Baoxu Liu; Darius Chia; Veronika Csizmok; Patrick Farber; Julie D Forman-Kay; Claudiu C Gradinaru
Journal:  J Phys Chem B       Date:  2014-04-08       Impact factor: 2.991

8.  Sequence Determinants of Intracellular Phase Separation by Complex Coacervation of a Disordered Protein.

Authors:  Chi W Pak; Martyna Kosno; Alex S Holehouse; Shae B Padrick; Anuradha Mittal; Rustam Ali; Ali A Yunus; David R Liu; Rohit V Pappu; Michael K Rosen
Journal:  Mol Cell       Date:  2016-07-07       Impact factor: 17.970

9.  CIDER: Resources to Analyze Sequence-Ensemble Relationships of Intrinsically Disordered Proteins.

Authors:  Alex S Holehouse; Rahul K Das; James N Ahad; Mary O G Richardson; Rohit V Pappu
Journal:  Biophys J       Date:  2017-01-10       Impact factor: 4.033

Review 10.  Assemblages: functional units formed by cellular phase separation.

Authors:  Jeffrey A Toretsky; Peter E Wright
Journal:  J Cell Biol       Date:  2014-09-01       Impact factor: 10.539

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  47 in total

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2.  Relation between single-molecule properties and phase behavior of intrinsically disordered proteins.

Authors:  Gregory L Dignon; Wenwei Zheng; Robert B Best; Young C Kim; Jeetain Mittal
Journal:  Proc Natl Acad Sci U S A       Date:  2018-09-14       Impact factor: 11.205

3.  Interaction hot spots for phase separation revealed by NMR studies of a CAPRIN1 condensed phase.

Authors:  Tae Hun Kim; Brandon J Payliss; Michael L Nosella; Ian T W Lee; Yuki Toyama; Julie D Forman-Kay; Lewis E Kay
Journal:  Proc Natl Acad Sci U S A       Date:  2021-06-08       Impact factor: 11.205

4.  Comparative roles of charge, π, and hydrophobic interactions in sequence-dependent phase separation of intrinsically disordered proteins.

Authors:  Suman Das; Yi-Hsuan Lin; Robert M Vernon; Julie D Forman-Kay; Hue Sun Chan
Journal:  Proc Natl Acad Sci U S A       Date:  2020-11-02       Impact factor: 11.205

5.  Microfluidic characterization of macromolecular liquid-liquid phase separation.

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Journal:  Lab Chip       Date:  2020-11-10       Impact factor: 6.799

6.  Conformational Heterogeneity and FRET Data Interpretation for Dimensions of Unfolded Proteins.

Authors:  Jianhui Song; Gregory-Neal Gomes; Tongfei Shi; Claudiu C Gradinaru; Hue Sun Chan
Journal:  Biophys J       Date:  2017-09-05       Impact factor: 4.033

7.  An analytical theory to describe sequence-specific inter-residue distance profiles for polyampholytes and intrinsically disordered proteins.

Authors:  Jonathan Huihui; Kingshuk Ghosh
Journal:  J Chem Phys       Date:  2020-04-30       Impact factor: 3.488

8.  A unified analytical theory of heteropolymers for sequence-specific phase behaviors of polyelectrolytes and polyampholytes.

Authors:  Yi-Hsuan Lin; Jacob P Brady; Hue Sun Chan; Kingshuk Ghosh
Journal:  J Chem Phys       Date:  2020-01-31       Impact factor: 3.488

9.  Identifying sequence perturbations to an intrinsically disordered protein that determine its phase-separation behavior.

Authors:  Benjamin S Schuster; Gregory L Dignon; Wai Shing Tang; Fleurie M Kelley; Aishwarya Kanchi Ranganath; Craig N Jahnke; Alison G Simpkins; Roshan Mammen Regy; Daniel A Hammer; Matthew C Good; Jeetain Mittal
Journal:  Proc Natl Acad Sci U S A       Date:  2020-05-11       Impact factor: 11.205

10.  Phase Separation of Toxic Dipeptide Repeat Proteins Related to C9orf72 ALS/FTD.

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Journal:  Biophys J       Date:  2020-07-16       Impact factor: 4.033

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