Machine learning-guided protein engineering

P Kouba, P Kohout, F Haddadi, A Bushuiev… - ACS …, 2023 - ACS Publications
Recent progress in engineering highly promising biocatalysts has increasingly involved
machine learning methods. These methods leverage existing experimental and simulation …

Opportunities and challenges for machine learning-assisted enzyme engineering

J Yang, FZ Li, FH Arnold - ACS Central Science, 2024 - ACS Publications
Enzymes can be engineered at the level of their amino acid sequences to optimize key
properties such as expression, stability, substrate range, and catalytic efficiency─ or even to …

Advancing enzyme's stability and catalytic efficiency through synergy of force-field calculations, evolutionary analysis, and machine learning

A Kunka, SM Marques, M Havlasek, M Vasina… - ACS …, 2023 - ACS Publications
Thermostability is an essential requirement for the use of enzymes in the bioindustry. Here,
we compare different protein stabilization strategies using a challenging target, a stable …

Building enzymes through design and evolution

EJ Hossack, FJ Hardy, AP Green - ACS Catalysis, 2023 - ACS Publications
Designing efficient enzymes is a formidable challenge at the forefront of modern
biocatalysis. Here, we review recent developments in the field and illustrate how the …

Stable and functionally diverse versatile peroxidases designed directly from sequences

S Barber-Zucker, V Mindel, E Garcia-Ruiz… - Journal of the …, 2022 - ACS Publications
White-rot fungi secrete a repertoire of high-redox potential oxidoreductases to efficiently
decompose lignin. Of these enzymes, versatile peroxidases (VPs) are the most promiscuous …

FireProt 2.0: web-based platform for the fully automated design of thermostable proteins

M Musil, A Jezik, J Horackova, S Borko… - Briefings in …, 2024 - academic.oup.com
Thermostable proteins find their use in numerous biomedical and biotechnological
applications. However, the computational design of stable proteins often results in single …

Engineering enzymes for environmental sustainability

E Radley, J Davidson, J Foster… - Angewandte Chemie …, 2023 - Wiley Online Library
The development and implementation of sustainable catalytic technologies is key to
delivering our net‐zero targets. Here we review how engineered enzymes, with a focus on …

Designed active-site library reveals thousands of functional GFP variants

JY Weinstein, C Martí-Gómez, R Lipsh-Sokolik… - Nature …, 2023 - nature.com
Mutations in a protein active site can lead to dramatic and useful changes in protein activity.
The active site, however, is sensitive to mutations due to a high density of molecular …

Designed high-redox potential laccases exhibit high functional diversity

S Barber-Zucker, I Mateljak, M Goldsmith… - ACS …, 2022 - ACS Publications
White-rot fungi secrete an impressive repertoire of high-redox potential laccases (HRPLs)
and peroxidases for efficient oxidation and utilization of lignin. Laccases are attractive …

The beauty of biocatalysis: sustainable synthesis of ingredients in cosmetics

RS Heath, RE Ruscoe, NJ Turner - Natural Product Reports, 2022 - pubs.rsc.org
Covering: 2015 up to July 2021 The market for cosmetics is consumer driven and the desire
for green, sustainable and natural ingredients is increasing. The use of isolated enzymes …