Protein compactness and interaction valency define the architecture of a biomolecular condensate across scales

Phase Transitions of Associative Biomacromolecules

(2023) Rohit V. Pappu et al.   Chemical Reviews

On the role of phase separation in the biogenesis of membraneless compartments

(2022) Andrea Musacchio   EMBO JOURNAL

Modeling the Structure and Interactions of Intrinsically Disordered Peptides with Multiple Replica, Metadynamics-Based Sampling Methods and Force-Field Combinations

(2022) Lunna Li et al.   Journal of Chemical Theory and Computation

Dilute phase oligomerization can oppose phase separation and modulate material properties of a ribonucleoprotein condensate

(2022) Ian Seim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Competing interactions give rise to two-state behavior and switch-like transitions in charge-rich intrinsically disordered proteins

(2022) Xiangze Zeng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A conceptual framework for understanding phase separation and addressing open questions and challenges

(2022) Tanja Mittag et al.   MOLECULAR CELL

Phase-separating RNA-binding proteins form heterogeneous distributions of clusters in subsaturated solutions

(2022) Mrityunjoy Kar et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Hydrophobicity of arginine leads to reentrant liquid-liquid phase separation behaviors of arginine-rich proteins

(2022) Yuri Hong et al.   Nature Communications

Recent Developments in the Field of Intrinsically Disordered Proteins: Intrinsic Disorder–Based Emergence in Cellular Biology in Light of the Physiological and Pathological Liquid–Liquid Phase Transitions

(2021) Vladimir N. Uversky   Annual Review of Biophysics

Phase separation of DNA: from past to present

(2021) John T. King et al.   BIOPHYSICAL JOURNAL

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

(2021) Simon Alberti et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Reentrant liquid condensate phase of proteins is stabilized by hydrophobic and non-ionic interactions

(2021) Georg Krainer et al.   Nature Communications

Uncovering Differences in Hydration Free Energies and Structures for Model Compound Mimics of Charged Side Chains of Amino Acids

(2021) Martin J. Fossat et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Arginine multivalency stabilizes protein/ RNA condensates

(2021) Matteo Paloni et al.   PROTEIN SCIENCE

Liquid–Liquid Phase Separation: A Widespread and Versatile Way to Organize Aqueous Solutions

(2021) Christine D. Keating et al.   Journal of Physical Chemistry Letters

Deciphering how naturally occurring sequence features impact the phase behaviours of disordered prion-like domains

(2021) Anne Bremer et al.   Nature Chemistry

Physical Principles Underlying the Complex Biology of Intracellular Phase Transitions

(2020) Jeong-Mo Choi et al.   Annual Review of Biophysics

TDP-43 α-helical structure tunes liquid–liquid phase separation and function

(2020) Alexander E. Conicella et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Valence and patterning of aromatic residues determine the phase behavior of prion-like domains

(2020) Erik W. Martin et al.   SCIENCE

Competing Protein-RNA Interaction Networks Control Multiphase Intracellular Organization

(2020) David W. Sanders et al.   CELL

RNA-Induced Conformational Switching and Clustering of G3BP Drive Stress Granule Assembly by Condensation

(2020) Jordina Guillén-Boixet et al.   CELL

Phase separation directs ubiquitination of gene-body nucleosomes

(2020) Laura D. Gallego et al.   NATURE

Liquid network connectivity regulates the stability and composition of biomolecular condensates with many components

(2020) Jorge R. Espinosa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2020) Benjamin S. Schuster et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gelation of whey protein fractal aggregates induced by the interplay between added HCl, CaCl2 and NaCl

(2020) Anna Kharlamova et al.   INTERNATIONAL DAIRY JOURNAL

De novo engineering of intracellular condensates using artificial disordered proteins

(2020) Michael Dzuricky et al.   Nature Chemistry

Unraveling Molecular Interactions in Liquid–Liquid Phase Separation of Disordered Proteins by Atomistic Simulations

(2020) Matteo Paloni et al.   JOURNAL OF PHYSICAL CHEMISTRY B

The nucleolus as a multiphase liquid condensate

(2020) Denis L. J. Lafontaine et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Tunable multiphase dynamics of arginine and lysine liquid condensates

(2020) Rachel S. Fisher et al.   Nature Communications

Simulation of FUS Protein Condensates with an Adapted Coarse-Grained Model

(2020) Zakarya Benayad et al.   Journal of Chemical Theory and Computation

Molecular Details of Protein Condensates Probed by Microsecond Long Atomistic Simulations

(2020) Wenwei Zheng et al.   JOURNAL OF PHYSICAL CHEMISTRY B

FracVAL: An improved tunable algorithm of cluster–cluster aggregation for generation of fractal structures formed by polydisperse primary particles

(2019) J. Morán et al.   COMPUTER PHYSICS COMMUNICATIONS

Dynamic cluster formation determines viscosity and diffusion in dense protein solutions

(2019) Sören von Bülow et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular interactions underlying liquid−liquid phase separation of the FUS low-complexity domain

(2019) Anastasia C. Murthy et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

RNA is a critical element for the sizing and the composition of phase-separated RNA–protein condensates

(2019) Marina Garcia-Jove Navarro et al.   Nature Communications

Liquid–Liquid Phase Separation in Disease

(2019) Simon Alberti et al.   Annual Review of Genetics

Protein abundance biases the amino-acid composition of disordered regions to minimize non-functional interactions

(2019) Benjamin Dubreuil et al.   JOURNAL OF MOLECULAR BIOLOGY

Quantifying Dynamics in Phase-Separated Condensates Using Fluorescence Recovery after Photobleaching

(2019) Nicole O. Taylor et al.   BIOPHYSICAL JOURNAL

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

(2019) David T. McSwiggen et al.   GENES & DEVELOPMENT

Formation of biological condensates via phase separation: Characteristics, analytical methods, and physiological implications

(2019) Zhe Feng et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Protein Network Structure Enables Switching between Liquid and Gel States

(2019) Jeremy D. Schmit et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

In Aqua Veritas: The Indispensable yet Mostly Ignored Role of Water in Phase Separation and Membrane-less Organelles

(2018) Boris Y. Zaslavsky et al.   BIOCHEMISTRY

A Molecular Grammar Governing the Driving Forces for Phase Separation of Prion-like RNA Binding Proteins

(2018) Jie Wang et al.   CELL

Self-Consistent Framework Connecting Experimental Proxies of Protein Dynamics with Configurational Entropy

(2018) Markus Fleck et al.   Journal of Chemical Theory and Computation

Computational Signaling Protein Dynamics and Geometric Mass Relations in Biomolecular Diffusion

(2018) Christopher J. Fennell et al.   JOURNAL OF PHYSICAL CHEMISTRY B

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

(2018) Veronica H. Ryan et al.   MOLECULAR CELL

Protein Phase Separation: A New Phase in Cell Biology

(2018) Steven Boeynaems et al.   TRENDS IN CELL BIOLOGY

Pi-Pi contacts are an overlooked protein feature relevant to phase separation

(2018) Robert McCoy Vernon et al.   eLife

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

(2018) Gregory L. Dignon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Author Correction: Injectable tissue integrating networks from recombinant polypeptides with tunable order

(2018) Stefan Roberts et al.   NATURE MATERIALS

Dependence of Binding Free Energies between RNA Nucleobases and Protein Side Chains on Local Dielectric Properties

(2017) Anita de Ruiter et al.   Journal of Chemical Theory and Computation

RNA phase transitions in repeat expansion disorders

(2017) Ankur Jain et al.   NATURE

Phase behaviour of disordered proteins underlying low density and high permeability of liquid organelles

(2017) Ming-Tzo Wei et al.   Nature Chemistry

Biomolecular condensates: organizers of cellular biochemistry

(2017) Salman F. Banani et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Structural and hydrodynamic properties of an intrinsically disordered region of a germ cell-specific protein on phase separation

(2017) Jacob P. Brady et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The liquid structure of elastin

(2017) Sarah Rauscher et al.   eLife

Fractal-like structures in colloid science

(2016) S. Lazzari et al.   ADVANCES IN COLLOID AND INTERFACE SCIENCE

Phase separation in biology; functional organization of a higher order

(2016) Diana M. Mitrea et al.   Cell Communication and Signaling

PARENT: A Parallel Software Suite for the Calculation of Configurational Entropy in Biomolecular Systems

(2016) Markus Fleck et al.   Journal of Chemical Theory and Computation

Phase Separation by Low Complexity Domains Promotes Stress Granule Assembly and Drives Pathological Fibrillization

(2015) Amandine Molliex et al.   CELL

Fragmentation of Amyloid Fibrils Occurs in Preferential Positions Depending on the Environmental Conditions

(2015) Lucrèce Nicoud et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Water Dispersion Interactions Strongly Influence Simulated Structural Properties of Disordered Protein States

(2015) Stefano Piana et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Formation and Maturation of Phase-Separated Liquid Droplets by RNA-Binding Proteins

(2015) Yuan Lin et al.   MOLECULAR CELL

Phase Transition of a Disordered Nuage Protein Generates Environmentally Responsive Membraneless Organelles

(2015) Timothy J. Nott et al.   MOLECULAR CELL

Polymer physics of intracellular phase transitions

(2015) Clifford P. Brangwynne et al.   Nature Physics

The Phyre2 web portal for protein modeling, prediction and analysis

(2015) Lawrence A Kelley et al.   Nature Protocols

The disordered P granule protein LAF-1 drives phase separation into droplets with tunable viscosity and dynamics

(2015) Shana Elbaum-Garfinkle et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Coarse-Grained Model for Polyglutamine Aggregation Modulated by Amphipathic Flanking Sequences

(2014) Kiersten M. Ruff et al.   BIOPHYSICAL JOURNAL

Retrieving the intracellular topology from multi-scale protein mobility mapping in living cells

(2014) Michael Baum et al.   Nature Communications

Biomolecular Simulation: A Computational Microscope for Molecular Biology

(2012) Ron O. Dror et al.   Annual Review of Biophysics

Membrane lipid phase transitions and phase organization studied by Fourier transform infrared spectroscopy

(2012) Ruthven N.A.H. Lewis et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES

Efficient Calculation of Molecular Configurational Entropies Using an Information Theoretic Approximation

(2012) Bracken M. King et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Terminology of polymers and polymerization processes in dispersed systems (IUPAC Recommendations 2011)

(2011) Stanislaw Slomkowski et al.   PURE AND APPLIED CHEMISTRY

Improved side-chain torsion potentials for the Amber ff99SB protein force field

(2010) Kresten Lindorff-Larsen et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

A Self-Consistent Description of the Conformational Behavior of Chemically Denatured Proteins from NMR and Small Angle Scattering

(2009) Pau Bernadó et al.   BIOPHYSICAL JOURNAL

Adaptation of a Membrane-active Peptide to Heterogeneous Environment. I. Structural Plasticity of the Peptide

(2009) Anton A. Polyansky et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Intrinsically Disordered Proteins and Their Environment: Effects of Strong Denaturants, Temperature, pH, Counter Ions, Membranes, Binding Partners, Osmolytes, and Macromolecular Crowding

(2009) Vladimir N. Uversky   PROTEIN JOURNAL

Germline P Granules Are Liquid Droplets That Localize by Controlled Dissolution/Condensation

(2009) C. P. Brangwynne et al.   SCIENCE

Dynamic Light Scattering for the Characterization of Polydisperse Fractal Systems: I. Simulation of the Diffusional Behavior

(2008) Uwe Kätzel et al.   PARTICLE & PARTICLE SYSTEMS CHARACTERIZATION