[HTML][HTML] Computational methods to predict protein aggregation

S Navarro, S Ventura - Current Opinion in Structural Biology, 2022 - Elsevier
In most cases, protein aggregation stems from the establishment of non-native
intermolecular contacts. The formation of insoluble protein aggregates is associated with …

Protein aggregation: in silico algorithms and applications

R Prabakaran, P Rawat, AM Thangakani, S Kumar… - Biophysical …, 2021 - Springer
Protein aggregation is a topic of immense interest to the scientific community due to its role
in several neurodegenerative diseases/disorders and industrial importance. Several in silico …

Structure-based machine-guided mapping of amyloid sequence space reveals uncharted sequence clusters with higher solubilities

N Louros, G Orlando, M De Vleeschouwer… - Nature …, 2020 - nature.com
The amyloid conformation can be adopted by a variety of sequences, but the precise
boundaries of amyloid sequence space are still unclear. The currently charted amyloid …

Spiders use structural conversion of globular amyloidogenic domains to make strong silk fibers

X Qi, H Wang, K Wang, Y Wang… - Advanced Functional …, 2024 - Wiley Online Library
Spider silk—an environmentally friendly protein‐based material—is widely recognized for its
extraordinary mechanical properties. Biomimetic spider silk‐like fibers made from …

Spider silk protein forms amyloid‐like nanofibrils through a non‐nucleation‐dependent polymerization mechanism

X Qi, Y Wang, H Yu, R Liu, A Leppert, Z Zheng… - Small, 2023 - Wiley Online Library
Amyloid fibrils—nanoscale fibrillar aggregates with high levels of order—are pathogenic in
some today incurable human diseases; however, there are also many physiologically …

From prions to stress granules: defining the compositional features of prion-like domains that promote different types of assemblies

A Fomicheva, ED Ross - International journal of molecular sciences, 2021 - mdpi.com
Stress granules are ribonucleoprotein assemblies that form in response to cellular stress.
Many of the RNA-binding proteins found in stress granule proteomes contain prion-like …

Protein co-aggregation related to amyloids: methods of investigation, diversity, and classification

SA Bondarev, KS Antonets, AV Kajava… - International journal of …, 2018 - mdpi.com
Amyloids are unbranched protein fibrils with a characteristic spatial structure. Although the
amyloids were first described as protein deposits that are associated with the diseases …

[HTML][HTML] Proteomic evidence for amyloidogenic cross-seeding in fibrinaloid microclots

DB Kell, E Pretorius - International Journal of Molecular …, 2024 - pmc.ncbi.nlm.nih.gov
In classical amyloidoses, amyloid fibres form through the nucleation and accretion of protein
monomers, with protofibrils and fibrils exhibiting a cross-β motif of parallel or antiparallel β …

Bioinformatics methods in predicting amyloid propensity of peptides and proteins

M Kotulska, JW Wojciechowski - … of Aggregation of Proteins and Peptides, 2022 - Springer
Several computational methods have been developed to predict amyloid propensity of a
protein or peptide. These bioinformatics tools are time-and cost-saving alternatives to …

Prediction and Evaluation of Protein Aggregation with Computational Methods

M Hassan, S Shahzadi, MS Li… - Prediction of Protein …, 2024 - Springer
Protein and peptide aggregation has recently become one of the most studied biomedical
problems due to its central role in several neurodegenerative disorders and of …