A review of enzyme design in catalytic stability by artificial intelligence

Y Ming, W Wang, R Yin, M Zeng, L Tang… - Briefings in …, 2023 - academic.oup.com
The design of enzyme catalytic stability is of great significance in medicine and industry.
However, traditional methods are time-consuming and costly. Hence, a growing number of …

Recent advances in user-friendly computational tools to engineer protein function

CE Sequeiros-Borja, B Surpeta… - Briefings in …, 2021 - academic.oup.com
Progress in technology and algorithms throughout the past decade has transformed the field
of protein design and engineering. Computational approaches have become well-engrained …

FireProt 2.0: web-based platform for the fully automated design of thermostable proteins

M Musil, A Jezik, J Horackova, S Borko… - Briefings in …, 2024 - academic.oup.com
Thermostable proteins find their use in numerous biomedical and biotechnological
applications. However, the computational design of stable proteins often results in single …

Protein engineering via Bayesian optimization-guided evolutionary algorithm and robotic experiments

R Hu, L Fu, Y Chen, J Chen, Y Qiao… - Briefings in …, 2023 - academic.oup.com
Directed protein evolution applies repeated rounds of genetic mutagenesis and phenotypic
screening and is often limited by experimental throughput. Through in silico prioritization of …

Web-based tools for computational enzyme design

SM Marques, J Planas-Iglesias, J Damborsky - Current Opinion in Structural …, 2021 - Elsevier
Highlights•Enzymes are increasingly used in technological applications but often require
prior optimization.•Computational tools save time and effort in protein engineering …

Predicting the stability of mutant proteins by computational approaches: an overview

A Marabotti, B Scafuri, A Facchiano - Briefings in Bioinformatics, 2021 - academic.oup.com
A very large number of computational methods to predict the change in thermodynamic
stability of proteins due to mutations have been developed during the last 30 years, and …

Recent advances in structure‐based enzyme engineering for functional reconstruction

SY Xu, L Zhou, Y Xu, HY Hong, C Dai… - Biotechnology and …, 2023 - Wiley Online Library
Structural information can help engineer enzymes. Usually, specific amino acids in particular
regions are targeted for functional reconstruction to enhance the catalytic performance …

Mechanistic insights into global suppressors of protein folding defects

G Chattopadhyay, J Bhowmick, K Manjunath… - PLoS …, 2022 - journals.plos.org
Most amino acid substitutions in a protein either lead to partial loss-of-function or are near
neutral. Several studies have shown the existence of second-site mutations that can rescue …

Probing the Energy Landscape of Spectrin R15 and R16 and the Effects of Non-native Interactions

FB da Silva, V Martins de Oliveira… - The Journal of …, 2023 - ACS Publications
Understanding the details of a protein folding mechanism can be a challenging and complex
task. One system with an interesting folding behavior is the α-spectrin domain, where the …

Rational design engineering of a more thermostable Sulfurihydrogenibium yellowstonense carbonic anhydrase for potential application in carbon dioxide capture …

S Ghaedizadeh, M Zeinali, B Dabirmanesh… - … et Biophysica Acta (BBA …, 2024 - Elsevier
Implementing hyperthermostable carbonic anhydrases into CO 2 capture and storage
technologies in order to increase the rate of CO 2 absorption from the industrial flue gases is …