AIMC Topic: Protein Engineering

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Development and characterization of an α-l-rhamnosidase mutant with improved thermostability and a higher efficiency for debittering orange juice.

Food chemistry
The glycoside hydrolase, α-l-rhamnosidase, could remove the bitter taste of naringin from citrus juices. However, most α-l-rhamnosidases are easily deactivated at high temperatures, limiting the practice in debittering citrus juices. The V529A mutant...

Fully automatized high-throughput enzyme library screening using a robotic platform.

Biotechnology and bioengineering
A fully automatized robotic platform has been established to facilitate high-throughput screening for protein engineering purposes. This platform enables proper monitoring and control of growth conditions in the microtiter plate format to ensure prec...

The potential of random forest and neural networks for biomass and recombinant protein modeling in Escherichia coli fed-batch fermentations.

Biotechnology journal
Product quality assurance strategies in production of biopharmaceuticals currently undergo a transformation from empirical "quality by testing" to rational, knowledge-based "quality by design" approaches. The major challenges in this context are the ...

Results of the Protein Engineering Tournament: An Open Science Benchmark for Protein Modeling and Design.

Proteins
The grand challenge of protein engineering is the development of computational models to characterize and generate protein sequences for arbitrary functions. Progress is limited by lack of (1) benchmarking opportunities, (2) large protein function da...

Synthetic Biology for Designing Allostery and Its Potential Biomedical Applications.

Journal of molecular biology
Allosteric regulation of protein function, where a perturbation at one site induces a conformational shift or alters dynamics at a distal functional site, plays a key role in numerous biological processes. The ability to introduce allostery using syn...

Computational modeling and experimental validation of the interaction between tumor biomarker mesothelin and an engineered targeting protein with therapeutic activity.

Protein science : a publication of the Protein Society
Mesothelin (MSLN) is a cell surface glycoprotein overexpressed in many solid tumors, which is known to interact with cancer antigen CA125/MUC16, promoting cancer cell adhesion and metastasis. MSLN has been used as a target of multiple antibody-based ...

Engineering catalytically promiscuous enzymes to serve new functions.

Biotechnology advances
Catalytic promiscuity in enzymes refers to their ability to catalyze multiple chemically distinct reactions in addition to their native activity. The increasing discovery of additional enzymes exhibiting catalytic promiscuity has underscored the sign...

AI-driven de novo enzyme design: Strategies, applications, and future prospects.

Biotechnology advances
Enzymes are indispensable for biological processes and diverse applications across industries. While top-down modification strategies, such as directed evolution, have achieved remarkable success in optimizing existing enzymes, bottom-up de novo enzy...

Protease engineering: Approaches, tools, and emerging trends.

Biotechnology advances
Engineered proteases with bespoke substrate specificities and activities can empower broad and innovative applications in biomedicine, mass spectrometry-based proteomics, and chemical and synthetic biology. This review provides an authoritative, topi...

Artificial intelligence and first-principle methods in protein redesign: A marriage of convenience?

Protein science : a publication of the Protein Society
Since AlphaFold2's rise, many deep learning methods for protein design have emerged. Here, we validate widely used and recognized tools, compare them with first-principle methods, and explore their combinations, focusing on their effectiveness in pro...