Protein Engineering

Published: 02/03/2021

Authors: Guangyue Li Youcai Qin, Nicolas T. Fontaine, Matthieu Ng Fuk Chong, Miguel Angel Maria-Solano, Ferran Feixas, Xavier F. Cadet, Rudy Pandjaitan, Marc Garcia-Borràs, Frederic Cadet, Manfred T. Reetz

Journal: ChemBioChem

Protein Engineering

Machine Learning Enables Selection of Epistatic Enzyme Mutants for Stability Against Unfolding and Detrimental Aggregation

Novel Descriptors and Digital Signal Processing- Based Method for Protein Sequence Activity Relationship

One‐shot Optimization of Multiple Enzyme Parameters: Tailoring Glucose Oxidase for pH and Electron Mediators

A machine learning approach for reliable prediction of amino acid interactions and its application in the directed evolution of enantioselective enzymes

Application of Fourier transform and proteochemometrics principles to protein engineering

Protein Science

Versatile Dimerisation Process of Translocator Protein (TSPO) Revealed by an Extensive Sampling Based on a Coarse-Grained Dynamics Study

Structural variations within proteins can be as large as variations observed across their homologues

Non-Linear Dynamics Analysis of Protein Sequences. Application to CYP450

Knowledge-based prediction of protein backbone conformation using a structural alphabet

Use of a structural alphabet to find compatible folds for amino acid sequences

Analysis of loop boundaries using different local structure assignment methods

Protein short loop prediction in terms of a structural alphabet

Synthetic Biology

Non-linearity of Metabolic Pathways Critically Influences the Choice of Machine Learning Model

Identification of flux checkpoints in a metabolic pathway through white-box, grey-box and black-box modeling approaches

A Machine Learning Approach for Efficient Selection of Enzyme Concentrations and Its Application for Flux Optimization

Flux prediction using artificial neural network (ANN) for the upper part of glycolysis

Modeling of a Cell-Free Synthetic System for Biohydrogen Production

Antibodies

VHH Structural Modelling Approaches: A Critical Review

Discrete analysis of camelid variable domains: sequences, structures, and in-silico structure prediction

Physico-chemical characterization

Use of Machine learning and infrared spectra for rheological characterization and application to the apricot

PEACCEL’s founders publications

Insights into Comparative Modeling of VHH Domains

A glance into the evolution of template-free protein structure prediction methodologies

Converting bulk sugars into prebiotics: semi-rational design of a transglucosylase with controlled selectivity

DoSA: Database of Structural Alignments

Correlation between local structural dynamics of proteins inferred from NMR ensembles and evolutionary dynamics of homologues of known structure

A substitution matrix for structural alphabet based on structural alignment of homologous proteins and its applications

Native and modeled disulfide bonds in proteins: Knowledge-based approaches toward structure prediction of disulfide-rich polypeptides