Alphafold2 in molecular discovery

A Nunes-Alves, K Merz - Journal of Chemical Information and …, 2023 - ACS Publications
Advanced machine learning methods impacted not only the prediction of properties for
small molecules and quantitative structure− activity relationships 1 but also the prediction of …

AlphaFold2 and the future of structural biology

P Cramer - Nature structural & molecular biology, 2021 - nature.com
… model for AlphaFold2 are now available for download via GitHub 1 . … of AlphaFold2 and
has already been applied to predict structures of several protein complexes. Like AlphaFold2, …

Benchmarking AlphaFold‐enabled molecular docking predictions for antibiotic discovery

F Wong, A Krishnan, EJ Zheng, H Stärk… - Molecular systems …, 2022 - embopress.org
… available from AlphaFold2. Here, we combine AlphaFold2 with molecular docking simulations
… learning‐based approaches, are needed to better harness AlphaFold2 for drug discovery. …

The power and pitfalls of AlphaFold2 for structure prediction beyond rigid globular proteins

V Agarwal, AC McShan - Nature Chemical Biology, 2024 - nature.com
… ’s AlphaFold2 in the context of its biological and therapeutic applications. We summarize
the subtleties associated with evaluation of AlphaFold2 … of proteins that AlphaFold2 can be …

AlphaFold2 structures guide prospective ligand discovery

J Lyu, N Kapolka, R Gumpper, A Alon, L Wang… - Science, 2024 - science.org
AlphaFold2 (AF2) models have had wide impact, but they have had mixed success in
retrospective ligand recognition. We prospectively docked large libraries against unrefined AF2 …

AlphaFold accelerates artificial intelligence powered drug discovery: efficient discovery of a novel CDK20 small molecule inhibitor

F Ren, X Ding, M Zheng, M Korzinkin, X Cai, W Zhu… - Chemical …, 2023 - pubs.rsc.org
… applied AlphaFold to our end-to-end AI-powered drug discovery … A novel hit molecule
against a novel target without an … the molecules based on the structure predicted by AlphaFold, …

[HTML][HTML] AlphaFold2 structures template ligand discovery

J Lyu, N Kapolka, R Gumpper, A Alon, L Wang… - BioRxiv, 2023 - ncbi.nlm.nih.gov
AlphaFold2 (AF2) and RosettaFold have greatly expanded the number of structures available
for structure-based ligand discovery, even though retrospective studies have cast doubt on …

[HTML][HTML] Reliability of AlphaFold2 Models in Virtual Drug Screening: A Focus on Selected Class A GPCRs

NK Alhumaid, EA Tawfik - International Journal of Molecular Sciences, 2024 - mdpi.com
… by developing the artificial intelligence (AI) system AlphaFold2 (AF2). The AF2 system provides
a … compared to the experimental structures in drug discovery, focusing on one of the most …

Benchmarking refined and unrefined AlphaFold2 structures for hit discovery

Y Zhang, M Vass, D Shi, E Abualrous… - Journal of Chemical …, 2023 - ACS Publications
AlphaFold2 (AF2) algorithm predicts proteins’ 3D structures from amino acid sequences. The
open AlphaFold protein … Using an industry-leading molecular docking method (Glide), we …

AlphaFold2 versus experimental structures: evaluation on G protein-coupled receptors

X He, C You, H Jiang, Y Jiang, HE Xu… - Acta Pharmacologica …, 2023 - nature.com
… Recently, AlphaFold2 has been developed to predict structure models of many functionally
… structure models predicted by AlphaFold2. We revealed that AlphaFold2 could capture the …