Multicomponent peptide assemblies

DM Raymond, BL Nilsson - Chemical Society Reviews, 2018 - pubs.rsc.org
Self-assembled peptide nanostructures have been increasingly exploited as functional
materials for applications in biomedicine and energy. The emergent properties of these …

Computational and theoretical advances in studies of intrinsically disordered proteins

RB Best - Current opinion in structural biology, 2017 - Elsevier
Highlights•Improvements in all-atom simulations and implicit solvent models now allow IDP
simulations with realistic dimensions to be performed.•Native-centric coarse-grained …

Molecular details of protein condensates probed by microsecond long atomistic simulations

W Zheng, GL Dignon, N Jovic, X Xu… - The Journal of …, 2020 - ACS Publications
The formation of membraneless organelles in cells commonly occurs via liquid–liquid phase
separation (LLPS) and is in many cases driven by multivalent interactions between …

Thermodynamically driven assemblies and liquid–liquid phase separations in biology

H Falahati, A Haji-Akbari - Soft matter, 2019 - pubs.rsc.org
The sustenance of life depends on the high degree of organization that prevails through
different levels of living organisms, from subcellular structures such as biomolecular …

Integrated view of internal friction in unfolded proteins from single-molecule FRET, contact quenching, theory, and simulations

A Soranno, A Holla, F Dingfelder, D Nettels… - Biophysical …, 2017 - cell.com
The dynamics of proteins, which are essential for both folding and function, are known to be
strongly dependent on solvent viscosity or friction. However, an increasing number of …

Single-molecule detection of ultrafast biomolecular dynamics with nanophotonics

MF Nüesch, MT Ivanović, JB Claude… - Journal of the …, 2021 - ACS Publications
Single-molecule Förster resonance energy transfer (FRET) is a versatile technique for
probing the structure and dynamics of biomolecules even in heterogeneous ensembles …

Inferring properties of disordered chains from FRET transfer efficiencies

W Zheng, G Zerze, A Borgia, J Mittal, B Schuler… - Biophysical …, 2018 - cell.com
Förster resonance energy transfer (FRET) is a powerful tool for elucidating both structural
and dynamic properties of unfolded or disordered biomolecules, especially in single …

Force field benchmark of amino acids: I. hydration and diffusion in different water models

H Zhang, C Yin, Y Jiang… - Journal of chemical …, 2018 - ACS Publications
Thermodynamic and kinetic properties are of critical importance for the applicability of
computational models to biomolecules such as proteins. Here we present an extensive …

Evolution of all-atom protein force fields to improve local and global properties

GH Zerze, W Zheng, RB Best… - The journal of physical …, 2019 - ACS Publications
Experimental studies on intrinsically disordered and unfolded proteins have shown that in
isolation they typically have low populations of secondary structure and exhibit distance …

Recent advances in computational protocols addressing intrinsically disordered proteins

S Bhattacharya, X Lin - Biomolecules, 2019 - mdpi.com
Intrinsically disordered proteins (IDP) are abundant in the human genome and have recently
emerged as major therapeutic targets for various diseases. Unlike traditional proteins that …