The molecular basis for cellular function of intrinsically disordered protein regions

AS Holehouse, BB Kragelund - Nature Reviews Molecular Cell Biology, 2024 - nature.com
Intrinsically disordered protein regions exist in a collection of dynamic interconverting
conformations that lack a stable 3D structure. These regions are structurally heterogeneous …

Conformational dynamics of intrinsically disordered proteins regulate biomolecular condensate chemistry

A Abyzov, M Blackledge, M Zweckstetter - Chemical Reviews, 2022 - ACS Publications
Motions in biomolecules are critical for biochemical reactions. In cells, many biochemical
reactions are executed inside of biomolecular condensates formed by ultradynamic …

Interactions between metal oxides and biomolecules: from fundamental understanding to applications

MJ Limo, A Sola-Rabada, E Boix, V Thota… - Chemical …, 2018 - ACS Publications
Metallo-oxide (MO)-based bioinorganic nanocomposites promise unique structures,
physicochemical properties, and novel biochemical functionalities, and within the past …

Large-scale assessment of binding free energy calculations in active drug discovery projects

CEM Schindler, H Baumann, A Blum… - Journal of Chemical …, 2020 - ACS Publications
Accurate ranking of compounds with regards to their binding affinity to a protein using
computational methods is of great interest to pharmaceutical research. Physics-based free …

Mutation-induced changes in the receptor-binding interface of the SARS-CoV-2 Delta variant B. 1.617. 2 and implications for immune evasion

P Baral, N Bhattarai, ML Hossen, V Stebliankin… - Biochemical and …, 2021 - Elsevier
Following the initial surges of the Alpha (B. 1.1. 7) and the Beta (B. 1.351) variants, a more
infectious Delta variant (B. 1.617. 2) is now surging, further deepening the health crises …

Simulation studies of amyloidogenic polypeptides and their aggregates

IM Ilie, A Caflisch - Chemical reviews, 2019 - ACS Publications
Amyloids, fibrillar assembly of (poly) peptide chains, are associated with neurodegenerative
illnesses such as Alzheimer's and Parkinson's diseases, for which there are no cures. The …

[HTML][HTML] A practical guide to biologically relevant molecular simulations with charge scaling for electronic polarization

E Duboue-Dijon, M Javanainen, P Delcroix… - The Journal of …, 2020 - pubs.aip.org
Molecular simulations can elucidate atomistic-level mechanisms of key biological
processes, which are often hardly accessible to experiment. However, the results of the …

Recent force field strategies for intrinsically disordered proteins

J Mu, H Liu, J Zhang, R Luo… - Journal of chemical …, 2021 - ACS Publications
Intrinsically disordered proteins (IDPs) are widely distributed across eukaryotic cells, playing
important roles in molecular recognition, molecular assembly, post-translational …

[HTML][HTML] On the potential of machine learning to examine the relationship between sequence, structure, dynamics and function of intrinsically disordered proteins

K Lindorff-Larsen, BB Kragelund - Journal of Molecular Biology, 2021 - Elsevier
Intrinsically disordered proteins (IDPs) constitute a broad set of proteins with few uniting and
many diverging properties. IDPs—and intrinsically disordered regions (IDRs) interspersed …

Targeting intrinsically disordered proteins at the edge of chaos

H Ruan, Q Sun, W Zhang, Y Liu, L Lai - Drug discovery today, 2019 - Elsevier
Highlights•Intrinscially disordered proteins (IDPs) are abundant and involved in many
diseases.•Advances and challenges in drug design targeting IDPs are discussed.•Known …