Opportunities and challenges for machine learning-assisted enzyme engineering
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 …
properties such as expression, stability, substrate range, and catalytic efficiency─ or even to …
Artificial metalloenzymes
T Vornholt, F Leiss-Maier, WJ Jeong… - Nature Reviews …, 2024 - nature.com
The development of artificial metalloenzymes (ArMs) aims to expand the capabilities of
enzymatic catalysis, most notably towards new reaction mechanisms. Frequently, ArMs …
enzymatic catalysis, most notably towards new reaction mechanisms. Frequently, ArMs …
Self-play reinforcement learning guides protein engineering
Y Wang, H Tang, L Huang, L Pan, L Yang… - Nature Machine …, 2023 - nature.com
Designing protein sequences towards desired properties is a fundamental goal of protein
engineering, with applications in drug discovery and enzymatic engineering. Machine …
engineering, with applications in drug discovery and enzymatic engineering. Machine …
A combinatorially complete epistatic fitness landscape in an enzyme active site
Protein engineering often targets binding pockets or active sites which are enriched in
epistasis—nonadditive interactions between amino acid substitutions—and where the …
epistasis—nonadditive interactions between amino acid substitutions—and where the …
Emerging technologies for biocatalysis in the pharmaceutical industry
Biocatalysis is a key technology in the pharmaceutical industry as it can provide efficient and
sustainable catalytic routes toward active pharmaceutical ingredients (APIs). The …
sustainable catalytic routes toward active pharmaceutical ingredients (APIs). The …
Learning epistasis and residue coevolution patterns: Current trends and future perspectives for advancing enzyme engineering
Engineering proteins and enzymes with the desired functionality has broad applications in
molecular biology, biotechnology, biomedical sciences, health, and medicine. The vastness …
molecular biology, biotechnology, biomedical sciences, health, and medicine. The vastness …
Structure of Anabaena flos-aquae gas vesicles revealed by cryo-ET
Gas vesicles (GVs) are gas-filled protein nanostructures employed by several species of
bacteria and archaea as flotation devices to enable access to optimal light and nutrients …
bacteria and archaea as flotation devices to enable access to optimal light and nutrients …
Enhanced Sequence-Activity Mapping and Evolution of Artificial Metalloenzymes by Active Learning
Tailored enzymes are crucial for the transition to a sustainable bioeconomy. However,
enzyme engineering is laborious and failure-prone due to its reliance on serendipity. The …
enzyme engineering is laborious and failure-prone due to its reliance on serendipity. The …
LevSeq: Rapid Generation of Sequence-Function Data for Directed Evolution and Machine Learning
Sequence-function data provides valuable information about the protein functional
landscape but is rarely obtained during directed evolution campaigns. Here, we present …
landscape but is rarely obtained during directed evolution campaigns. Here, we present …
Metabolic and cellular engineering for the production of natural products
D Yang, H Eun, CPS Prabowo, S Cho… - Current Opinion in …, 2022 - Elsevier
Highlights•Systems metabolic engineering has enabled efficient production of natural
products.•Systems-level engineering of metabolism has increased pathway efficiencies.•Cell …
products.•Systems-level engineering of metabolism has increased pathway efficiencies.•Cell …