Using nature's blueprint to expand catalysis with Earth-abundant metals
BACKGROUND Catalysis has had a transformative impact on society, playing a crucial role
in the production of modern materials, medicines, fuels, and chemicals. Precious metals …
in the production of modern materials, medicines, fuels, and chemicals. Precious metals …
Protein ensembles: how does nature harness thermodynamic fluctuations for life? The diverse functional roles of conformational ensembles in the cell
All soluble proteins populate conformational ensembles that together constitute the native
state. Their fluctuations in water are intrinsic thermodynamic phenomena, and the …
state. Their fluctuations in water are intrinsic thermodynamic phenomena, and the …
Improving protein expression, stability, and function with ProteinMPNN
KH Sumida, R Núñez-Franco, I Kalvet… - Journal of the …, 2024 - ACS Publications
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 …
Synthetic biology for the directed evolution of protein biocatalysts: navigating sequence space intelligently
The amino acid sequence of a protein affects both its structure and its function. Thus, the
ability to modify the sequence, and hence the structure and activity, of individual proteins in …
ability to modify the sequence, and hence the structure and activity, of individual proteins in …
Differentially evolved glucosyltransferases determine natural variation of rice flavone accumulation and UV-tolerance
Decoration of phytochemicals contributes to the majority of metabolic diversity in nature,
whereas how this process alters the biological functions of their precursor molecules …
whereas how this process alters the biological functions of their precursor molecules …
The challenge of predicting distal active site mutations in computational enzyme design
S Osuna - Wiley Interdisciplinary Reviews: Computational …, 2021 - Wiley Online Library
Many computational enzyme design approaches have been developed in recent years that
focus on a reduced set of key enzymatic features. Initial protocols mostly focused on the …
focus on a reduced set of key enzymatic features. Initial protocols mostly focused on the …
Machine learning-guided acyl-ACP reductase engineering for improved in vivo fatty alcohol production
JC Greenhalgh, SA Fahlberg, BF Pfleger… - Nature …, 2021 - nature.com
Alcohol-forming fatty acyl reductases (FARs) catalyze the reduction of thioesters to alcohols
and are key enzymes for microbial production of fatty alcohols. Many metabolic engineering …
and are key enzymes for microbial production of fatty alcohols. Many metabolic engineering …
The role of conformational dynamics and allostery in modulating protein evolution
Advances in sequencing techniques and statistical methods have made it possible not only
to predict sequences of ancestral proteins but also to identify thousands of mutations in the …
to predict sequences of ancestral proteins but also to identify thousands of mutations in the …
Accurate prediction of enzyme thermostabilization with Rosetta using AlphaFold ensembles
F Peccati, S Alunno-Rufini… - Journal of chemical …, 2023 - ACS Publications
Thermostability enhancement is a fundamental aspect of protein engineering as a
biocatalyst's half-life is key for its industrial and biotechnological application, particularly at …
biocatalyst's half-life is key for its industrial and biotechnological application, particularly at …
Role of conformational dynamics in the evolution of novel enzyme function
MA Maria-Solano, E Serrano-Hervás… - Chemical …, 2018 - pubs.rsc.org
The free energy landscape concept that describes enzymes as an ensemble of differently
populated conformational sub-states in dynamic equilibrium is key for evaluating enzyme …
populated conformational sub-states in dynamic equilibrium is key for evaluating enzyme …