Fundamental Aspects of Phase-Separated Biomolecular Condensates

HX Zhou, D Kota, S Qin, R Prasad - Chemical Reviews, 2024 - ACS Publications
Biomolecular condensates, formed through phase separation, are upending our
understanding in much of molecular, cell, and developmental biology. There is an urgent …

Reentrant DNA shells tune polyphosphate condensate size

R Chawla, JKA Tom, T Boyd, NH Tu, T Bai… - Nature …, 2024 - nature.com
The inorganic biopolymer polyphosphate (polyP) occurs in all domains of life and affects
myriad cellular processes. A longstanding observation is polyP's frequent proximity to …

Sensing the structural and conformational properties of single-stranded nucleic acids using electrometry and molecular simulations

R Walker-Gibbons, X Zhu, A Behjatian, TJD Bennett… - Scientific Reports, 2024 - nature.com
Inferring the 3D structure and conformation of disordered biomolecules, eg, single stranded
nucleic acids (ssNAs), remains challenging due to their conformational heterogeneity in …

Topological Considerations in Biomolecular Condensation

D Das, AA Deniz - Biomolecules, 2023 - mdpi.com
Biomolecular condensation and phase separation are increasingly understood to play
crucial roles in cellular compartmentalization and spatiotemporal regulation of cell …

Atomistic insights into the reentrant phase-transitions in polyuracil and polylysine mixtures

V Ramachandran, DA Potoyan - The Journal of Chemical Physics, 2024 - pubs.aip.org
The phase separation of protein and RNA mixtures underpins the assembly and regulation
of numerous membraneless organelles in cells. The ubiquity of protein–RNA condensates in …

Competition between stacking and divalent cation-mediated electrostatic interactions determines the conformations of short DNA sequences

B Mondal, D Chakraborty, N Hori… - Journal of Chemical …, 2024 - ACS Publications
Interplay between divalent cations (Mg2+ and Ca2+) and single-stranded DNA (ssDNA) and
double-stranded DNA (dsDNA), as well as stacking interactions, is important in nucleosome …

Clustering of RNA Polymerase II C-Terminal Domain Models upon Phosphorylation

WD Amith, VT Chen, B Dutagaci - The Journal of Physical …, 2024 - ACS Publications
RNA polymerase II (Pol II) C-terminal domain (CTD) is known to have crucial roles in
regulating transcription. CTD has also been highly recognized for undergoing phase …

Atomistic Insights into Sequence-Mediated Spontaneous Association of Short RNA Chains

M Mondal, YQ Gao - Biochemistry, 2024 - ACS Publications
RNA–RNA association and phase separation appear to be essential for the assembly of
stress granules and underlie RNA foci formation in repeat expansion disorders. RNA …

Molecular Drivers of RNA Phase Separation

V Ramachandran, DA Potoyan - bioRxiv, 2025 - biorxiv.org
RNA molecules are essential in orchestrating the assembly of biomolecular condensates
and membraneless compartments in cells. Many condensates form via the association of …

Aging of biomolecular condensates reveals complexity—Through diffusion dynamics

AA Deniz - Biophysical Journal, 2025 - cell.com
Cellular condensates are membraneless organelles formed through phase separation or
related processes, but they need not be amorphous blobs. Many display internal structure …