Computational approaches streamlining drug discovery
AV Sadybekov, V Katritch - Nature, 2023 - nature.com
Computer-aided drug discovery has been around for decades, although the past few years
have seen a tectonic shift towards embracing computational technologies in both academia …
have seen a tectonic shift towards embracing computational technologies in both academia …
Modeling conformational states of proteins with AlphaFold
Many proteins exert their function by switching among different structures. Knowing the
conformational ensembles affiliated with these states is critical to elucidate key mechanistic …
conformational ensembles affiliated with these states is critical to elucidate key mechanistic …
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 …
How good are AlphaFold models for docking-based virtual screening?
V Scardino, JI Di Filippo, CN Cavasotto - Iscience, 2023 - cell.com
A crucial component in structure-based drug discovery is the availability of high-quality three-
dimensional structures of the protein target. Whenever experimental structures were not …
dimensional structures of the protein target. Whenever experimental structures were not …
[HTML][HTML] Integrating structure-based approaches in generative molecular design
Generative molecular design for drug discovery and development has seen a recent
resurgence promising to improve the efficiency of the design-make-test-analyse cycle; by …
resurgence promising to improve the efficiency of the design-make-test-analyse cycle; by …
Evaluation of AlphaFold2 structures as docking targets
AlphaFold2 is a promising new tool for researchers to predict protein structures and
generate high‐quality models, with low backbone and global root‐mean‐square deviation …
generate high‐quality models, with low backbone and global root‐mean‐square deviation …
AlphaFold, allosteric, and orthosteric drug discovery: Ways forward
R Nussinov, M Zhang, Y Liu, H Jang - Drug discovery today, 2023 - Elsevier
Highlights•AlphaFold models have rigid protein structures.•Advanced deep algorithms fed
relevant data can accurately predict structures.•Algorithmic advances can harness …
relevant data can accurately predict structures.•Algorithmic advances can harness …
Are deep learning structural models sufficiently accurate for virtual screening? application of docking algorithms to AlphaFold2 predicted structures
AM Díaz-Rovira, H Martín, T Beuming… - Journal of Chemical …, 2023 - ACS Publications
Machine learning-based protein structure prediction algorithms, such as RosettaFold and
AlphaFold2, have greatly impacted the structural biology field, arousing a fair amount of …
AlphaFold2, have greatly impacted the structural biology field, arousing a fair amount of …
State-specific protein–ligand complex structure prediction with a multiscale deep generative model
The binding complexes formed by proteins and small molecule ligands are ubiquitous and
critical to life. Despite recent advancements in protein structure prediction, existing …
critical to life. Despite recent advancements in protein structure prediction, existing …
Are deep learning structural models sufficiently accurate for free-energy calculations? Application of FEP+ to AlphaFold2-predicted structures
T Beuming, H Martín, AM Díaz-Rovira… - Journal of Chemical …, 2022 - ACS Publications
The availability of AlphaFold2 has led to great excitement in the scientific community─
particularly among drug hunters─ due to the ability of the algorithm to predict protein …
particularly among drug hunters─ due to the ability of the algorithm to predict protein …