Deep generative modeling for protein design

Alexey V. Strokach, Philip M. Kim

Current Opinion in Structural Biology 2021 review cited by 115

importance 7/10 ai assisted Protein Structure and Dynamics protein science stage: research

Designing novel proteins with desired structures, stability and function is slow and difficult; generative models are being applied to accelerate it.

Novel proteins could enable new medicines, enzymes and materials.

Review of five classes of deep generative models that learn protein representations and can rapidly propose millions of novel candidate proteins, guided by discriminative oracles.

not stated in source

Review synthesizes progress in AI-driven protein design; no new result demonstrated.

Venue Current Opinion in Structural Biology
Published 2021
Work type review
Authors Alexey V. Strokach, Philip M. Kim
Citations 115 (OpenAlex, at import time)
References 102
Model or method not stated in source
Organization not stated in source
Primary source https://doi.org/10.1016/j.sbi.2021.11.008
Open access hybrid
Keywords protein design, generative models, deep learning, protein sequences, review
7 / 10

significant — thousands to millions affected

Protein design underpins potential new medicines, enzymes, and materials; generative models can propose millions of candidates, a genuinely new capability for a foundational field.

Basis: inferred. Judged from the source text, which gives no explicit scale. Stated scale: not stated in source. Method and limits.

# Paper Year Citations Importance
1 AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models
Mihály Váradi, Stephen Anyango, Mandar Deshpande, Sreenath Sasidharan...
2021 7,782
9
2 Evolutionary-scale prediction of atomic-level protein structure with a language model
Zeming Lin, Halil Akin, Roshan Rao, Brian Hie, Zhongkai Zhu, Wenting L...
2023 5,455
9
3 Accurate prediction of protein structures and interactions using a three-track neural network
Minkyung Baek, Frank DiMaio, Ivan V. Anishchenko, Justas Dauparas, Ser...
2021 5,468
9
4 De novo design of protein structure and function with RFdiffusion
Joseph L. Watson, David Juergens, Nathaniel R. Bennett, Brian L. Tripp...
2023 2,294
9
5 Structure Prediction and Computational Protein Design for Efficient Biocatalysts and Bioactive Proteins
Rebecca Buller, Jiřı́ Damborský, Donald Hilvert, Uwe T. Bornscheuer
2024 40
9