Machine learning-guided protein engineering
Recent progress in engineering highly promising biocatalysts has increasingly involved
machine learning methods. These methods leverage existing experimental and simulation …
machine learning methods. These methods leverage existing experimental and simulation …
Loop dynamics and the evolution of enzyme activity
In the early 2000s, Tawfik presented his 'New View'on enzyme evolution, highlighting the
role of conformational plasticity in expanding the functional diversity of limited repertoires of …
role of conformational plasticity in expanding the functional diversity of limited repertoires of …
Big data mining, rational modification, and ancestral sequence reconstruction inferred multiple xylose isomerases for biorefinery
S Chen, Z Xu, B Ding, Y Zhang, S Liu, C Cai, M Li… - Science …, 2023 - science.org
The isomerization of xylose to xylulose is considered the most promising approach to initiate
xylose bioconversion. Here, phylogeny-guided big data mining, rational modification, and …
xylose bioconversion. Here, phylogeny-guided big data mining, rational modification, and …
[HTML][HTML] Insertions and deletions in protein evolution and engineering
Protein evolution or engineering studies are traditionally focused on amino acid
substitutions and the way these contribute to fitness. Meanwhile, the insertion and deletion …
substitutions and the way these contribute to fitness. Meanwhile, the insertion and deletion …
Hot spots-making directed evolution easier
Directed evolution has emerged as a powerful strategy to engineer various properties of
proteins. Traditional methods to construct libraries such as error-prone PCR and DNA …
proteins. Traditional methods to construct libraries such as error-prone PCR and DNA …
Computational enzyme redesign: large jumps in function
Rising demands for enzymes in biotechnological applications have fueled efforts to tailor
their properties towards desired functions, such as activity, selectivity, and stability …
their properties towards desired functions, such as activity, selectivity, and stability …
[HTML][HTML] Protein representations: Encoding biological information for machine learning in biocatalysis
D Harding-Larsen, J Funk, NG Madsen… - Biotechnology …, 2024 - Elsevier
Enzymes offer a more environmentally friendly and low-impact solution to conventional
chemistry, but they often require additional engineering for their application in industrial …
chemistry, but they often require additional engineering for their application in industrial …
Catalytic mechanism for Renilla-type luciferases
The widely used coelenterazine-powered Renilla luciferase was discovered over 40 years
ago, but the oxidative mechanism by which it generates blue photons remains unclear. Here …
ago, but the oxidative mechanism by which it generates blue photons remains unclear. Here …
Efficient and feasible biocatalysts: Strategies for enzyme improvement. A review
Owing to the environmental friendliness and vast advantages that enzymes offer in the
biotechnology and industry fields, biocatalysts are a prolific investigation field. However, the …
biotechnology and industry fields, biocatalysts are a prolific investigation field. However, the …
Multidisciplinary approaches for enzyme biocatalysis in pharmaceuticals: protein engineering, computational biology, and nanoarchitectonics
Enzyme biocatalysis is resha** pharmaceutical synthesis, offering sustainable and
efficient pathways for drug discovery and production. This paradigm shift towards eco …
efficient pathways for drug discovery and production. This paradigm shift towards eco …