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 …

Beyond pairwise: Higher-order physical interactions affect phase separation in multicomponent liquids

C Luo, Y Qiang, D Zwicker - Physical Review Research, 2024 - APS
Phase separation, crucial for spatially segregating biomolecules in cells, is well-understood
in the simple case of a few components with pairwise interactions. Yet, biological cells …

[HTML][HTML] Intra-condensate demixing of TDP-43 inside stress granules generates pathological aggregates

X Yan, D Kuster, P Mohanty, J Nijssen… - …, 2024 - pmc.ncbi.nlm.nih.gov
Cytosolic aggregation of the nuclear protein TDP-43 is associated with many
neurodegenerative diseases, but the triggers for TDP-43 aggregation are still debated. Here …

SOP-MULTI: A Self-Organized Polymer-Based Coarse-Grained Model for Multidomain and Intrinsically Disordered Proteins with Conformation Ensemble Consistent …

K Baratam, A Srivastava - Journal of Chemical Theory and …, 2024 - ACS Publications
Multidomain proteins with long flexible linkers and full-length intrinsically disordered
proteins (IDPs) are best defined as an ensemble of conformations rather than a single …

Weighted families of contact maps to characterize conformational ensembles of (highly-) flexible proteins

J González-Delgado, P Bernadó, P Neuvial… - …, 2024 - academic.oup.com
Motivation Characterizing the structure of flexible proteins, particularly within the realm of
intrinsic disorder, presents a formidable challenge due to their high conformational …

Expanding the molecular grammar of polar residues and arginine in FUS phase separation

N Wake, SL Weng, T Zheng, SH Wang… - Nature Chemical …, 2025 - nature.com
A molecular grammar governing low-complexity prion-like domain phase separation (PS)
has identified tyrosine and arginine as primary drivers via aromatic–aromatic and aromatic …

The Regulation of TDP-43 Structure and Phase Transitions: A Review

Y Liu, J **ang, H Gong, T Yu, M Gao, Y Huang - The Protein Journal, 2025 - Springer
The transactive response DNA binding protein 43 (TDP-43) is an RNA/DNA-binding protein
that is involved in a number of cellular functions, including RNA processing and alternative …

Structural details of helix-mediated TDP-43 C-terminal domain multimerization

A Rizuan, J Shenoy, P Mohanty, PMS Dos Passos… - …, 2024 - pmc.ncbi.nlm.nih.gov
The primarily disordered C-terminal domain (CTD) of TAR DNA binding protein-43 (TDP-
43), a key nuclear protein in RNA metabolism, forms neuronal inclusions in several …

Deciphering the Monomeric and Dimeric Conformational Landscapes of the Full-Length TDP-43 and the Impact of the C-Terminal Domain

V Tammara, AA Doke, SK Jha… - ACS Chemical …, 2024 - ACS Publications
The aberrant aggregation of TAR DNA-binding protein 43 kDa (TDP-43) in cells leads to the
pathogenesis of multiple fatal neurodegenerative diseases. Decoding the proposed initial …

Expanding the molecular grammar of polar residues and arginine in FUS prion-like domain phase separation and aggregation

N Wake, SL Weng, T Zheng, SH Wang, V Kirilenko… - …, 2024 - pmc.ncbi.nlm.nih.gov
A molecular grammar governing low-complexity prion-like domains phase separation (PS)
has been proposed based on mutagenesis experiments that identified tyrosine and arginine …