AlphaFold2 and its applications in the fields of biology and medicine
Z Yang, X Zeng, Y Zhao, R Chen - Signal Transduction and Targeted …, 2023 - nature.com
Abstract AlphaFold2 (AF2) is an artificial intelligence (AI) system developed by DeepMind
that can predict three-dimensional (3D) structures of proteins from amino acid sequences …
that can predict three-dimensional (3D) structures of proteins from amino acid sequences …
Mechanisms and pathology of protein misfolding and aggregation
Despite advances in machine learning-based protein structure prediction, we are still far
from fully understanding how proteins fold into their native conformation. The conventional …
from fully understanding how proteins fold into their native conformation. The conventional …
Machine learning-guided protein engineering
Recent progress in engineering highly promising biocatalysts has increasingly involved
machine learning methods. These methods leverage existing experimental and simulation …
machine learning methods. These methods leverage existing experimental and simulation …
The power and pitfalls of AlphaFold2 for structure prediction beyond rigid globular proteins
Artificial intelligence-driven advances in protein structure prediction in recent years have
raised the question: has the protein structure-prediction problem been solved? Here, with a …
raised the question: has the protein structure-prediction problem been solved? Here, with a …
AlphaFold2 can predict single-mutation effects
JM McBride, K Polev, A Abdirasulov, V Reinharz… - Physical Review Letters, 2023 - APS
AlphaFold2 (AF) is a promising tool, but is it accurate enough to predict single mutation
effects? Here, we report that the localized structural deformation between protein pairs …
effects? Here, we report that the localized structural deformation between protein pairs …
Structural analysis and architectural principles of the bacterial amyloid curli
Two decades have passed since the initial proposition that amyloids are not only (toxic)
byproducts of an unintended aggregation cascade, but that they can also be produced by an …
byproducts of an unintended aggregation cascade, but that they can also be produced by an …
Structure‐Based Drug Discovery with Deep Learning
Artificial intelligence (AI) in the form of deep learning has promise for drug discovery and
chemical biology, for example, to predict protein structure and molecular bioactivity, plan …
chemical biology, for example, to predict protein structure and molecular bioactivity, plan …
Generative modeling, design, and analysis of spider silk protein sequences for enhanced mechanical properties
Spider silks are remarkable materials characterized by superb mechanical properties such
as strength, extensibility, and lightweightedness. Yet, to date, limited models are available to …
as strength, extensibility, and lightweightedness. Yet, to date, limited models are available to …
Biological soft matter: intrinsically disordered proteins in liquid–liquid phase separation and biomolecular condensates
AV Fonin, IA Antifeeva, IM Kuznetsova… - Essays in …, 2022 - portlandpress.com
The facts that many proteins with crucial biological functions do not have unique structures
and that many biological processes are compartmentalized into the liquid-like biomolecular …
and that many biological processes are compartmentalized into the liquid-like biomolecular …
Approximating Projections of Conformational Boltzmann Distributions with AlphaFold2 Predictions: Opportunities and Limitations
Protein thermodynamics is intimately tied to biological function and can enable processes
such as signal transduction, enzyme catalysis, and molecular recognition. The relative free …
such as signal transduction, enzyme catalysis, and molecular recognition. The relative free …