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 …
AlphaFold, artificial intelligence (AI), and allostery
AlphaFold has burst into our lives. A powerful algorithm that underscores the strength of
biological sequence data and artificial intelligence (AI). AlphaFold has appended projects …
biological sequence data and artificial intelligence (AI). AlphaFold has appended projects …
Single-sequence protein structure prediction using a language model and deep learning
AlphaFold2 and related computational systems predict protein structure using deep learning
and co-evolutionary relationships encoded in multiple sequence alignments (MSAs) …
and co-evolutionary relationships encoded in multiple sequence alignments (MSAs) …
Harnessing protein folding neural networks for peptide–protein docking
Highly accurate protein structure predictions by deep neural networks such as AlphaFold2
and RoseTTAFold have tremendous impact on structural biology and beyond. Here, we …
and RoseTTAFold have tremendous impact on structural biology and beyond. Here, we …
AlphaFold predictions of fold-switched conformations are driven by structure memorization
Recent work suggests that AlphaFold (AF)–a deep learning-based model that can
accurately infer protein structure from sequence–may discern important features of folded …
accurately infer protein structure from sequence–may discern important features of folded …
The impact of AlphaFold2 one year on
The greatly improved prediction of protein 3D structure from sequence achieved by the
second version of AlphaFold in 2020 has already had a huge impact on biological research …
second version of AlphaFold in 2020 has already had a huge impact on biological research …
SPEACH_AF: Sampling protein ensembles and conformational heterogeneity with Alphafold2
RA Stein, HS Mchaourab - PLOS Computational Biology, 2022 - journals.plos.org
The unprecedented performance of Deepmind's Alphafold2 in predicting protein structure in
CASP XIV and the creation of a database of structures for multiple proteomes and protein …
CASP XIV and the creation of a database of structures for multiple proteomes and protein …
AlphaFold2 fails to predict protein fold switching
AlphaFold2 has revolutionized protein structure prediction by leveraging sequence
information to rapidly model protein folds with atomic‐level accuracy. Nevertheless, previous …
information to rapidly model protein folds with atomic‐level accuracy. Nevertheless, previous …
Machine-designed biotherapeutics: opportunities, feasibility and advantages of deep learning in computational antibody discovery
W Wilman, S Wróbel, W Bielska… - Briefings in …, 2022 - academic.oup.com
Antibodies are versatile molecular binders with an established and growing role as
therapeutics. Computational approaches to develo** and designing these molecules are …
therapeutics. Computational approaches to develo** and designing these molecules are …
Protein structure and folding pathway prediction based on remote homologs recognition using PAthreader
Recognition of remote homologous structures is a necessary module in AlphaFold2 and is
also essential for the exploration of protein folding pathways. Here, we propose a method …
also essential for the exploration of protein folding pathways. Here, we propose a method …