The road to fully programmable protein catalysis
The ability to design efficient enzymes from scratch would have a profound effect on
chemistry, biotechnology and medicine. Rapid progress in protein engineering over the past …
chemistry, biotechnology and medicine. Rapid progress in protein engineering over the past …
Biocatalysis
Biocatalysis has become an important aspect of modern organic synthesis, both in
academia and across the chemical and pharmaceutical industries. Its success has been …
academia and across the chemical and pharmaceutical industries. Its success has been …
Improving protein expression, stability, and function with ProteinMPNN
Natural proteins are highly optimized for function but are often difficult to produce at a scale
suitable for biotechnological applications due to poor expression in heterologous systems …
suitable for biotechnological applications due to poor expression in heterologous systems …
Direct generation of protein conformational ensembles via machine learning
Dynamics and conformational sampling are essential for linking protein structure to
biological function. While challenging to probe experimentally, computer simulations are …
biological function. While challenging to probe experimentally, computer simulations are …
Machine learning for chemical reactions
M Meuwly - Chemical Reviews, 2021 - ACS Publications
Machine learning (ML) techniques applied to chemical reactions have a long history. The
present contribution discusses applications ranging from small molecule reaction dynamics …
present contribution discusses applications ranging from small molecule reaction dynamics …
Enhanced active-site electric field accelerates enzyme catalysis
The design and improvement of enzymes based on physical principles remain challenging.
Here we demonstrate that the principle of electrostatic catalysis can be leveraged to …
Here we demonstrate that the principle of electrostatic catalysis can be leveraged to …
A backbone-centred energy function of neural networks for protein design
A protein backbone structure is designable if a substantial number of amino acid sequences
exist that autonomously fold into it,. It has been suggested that the designability of …
exist that autonomously fold into it,. It has been suggested that the designability of …
Ratcheting synthesis
Synthetic chemistry has traditionally relied on reactions between reactants of high chemical
potential and transformations that proceed energetically downhill to either a global or local …
potential and transformations that proceed energetically downhill to either a global or local …
Room-temperature crystallography reveals altered binding of small-molecule fragments to PTP1B
TS Mehlman, JT Biel, SM Azeem, ER Nelson… - Elife, 2023 - elifesciences.org
Much of our current understanding of how small-molecule ligands interact with proteins
stems from X-ray crystal structures determined at cryogenic (cryo) temperature. For proteins …
stems from X-ray crystal structures determined at cryogenic (cryo) temperature. For proteins …
Catalytic cycle of formate dehydrogenase captured by single-molecule conductance
Understanding the mechanisms and kinetics of enzymatic reactions is essential for studies
of life science and for bioengineering. Here the different reaction states in the catalytic cycle …
of life science and for bioengineering. Here the different reaction states in the catalytic cycle …