Emerging methods in protein co-evolution - Nature
WEBMar 5, 2013 · Co-evolutionary methods are applied to two different levels: inter-residue correlations in single proteins and correlations between evolutionary patterns of protein pairs or protein...
Protein interaction networks revealed by proteome coevolution
WEBJul 12, 2019 · We take advantage of this coevolution, in combination with structure modeling, to predict protein-protein interactions (PPIs) with an accuracy that benchmark studies suggest is considerably higher than that of proteome-wide two-hybrid and mass spectrometry screens.
CopulaNet: Learning residue co-evolution directly from ... - Nature
WEBMay 5, 2021 · Residue co-evolution has become the primary principle for estimating inter-residue distances of a protein, which are crucially important for predicting protein structure.
Deploying synthetic coevolution and machine learning to …
WEBFine-tuning of protein-protein interactions occurs naturally through coevolution, but this process is difficult to recapitulate in the laboratory. We describe a platform for synthetic protein-protein coevolution that can isolate matched pairs of interacting muteins from complex libraries.
Co-evolution based machine-learning for predicting functional
WEBNov 9, 2021 · Here, we develop a machine-learning approach for utilizing phylogenetic profiles across 1154 eukaryotic species. This method integrates co-evolution across eukaryotic clades to predict functional...
Protein co-evolution, co-adaptation and interactions - PubMed
WEBOct 22, 2008 · The extrapolation of the concepts and methodologies developed for the study of species co-evolution at the molecular level has prompted the development of a variety of computational methods able to predict protein interactions through the characteristics of co-evolution.
Practical aspects of protein co-evolution - PMC - National Center …
WEBApr 22, 2014 · Co-evolution is a fundamental aspect of Evolutionary Theory. At the molecular level, co-evolutionary linkages between protein families have been used as indicators of protein interactions and functional relationships from long ago.
Coevolution-based inference of amino acid interactions ... - eLife
WEBJul 19, 2018 · A deep mutational coupling study demonstrates the ability of sequence coevolution methods to reveal the pattern of amino acid interactions underlying protein function.
Emerging methods in protein co-evolution - PubMed
WEBHere, we review the main co-evolution-based computational approaches, their theoretical basis, potential applications and foreseeable developments.
Protein co‐evolution, co‐adaptation and interactions
WEBCo‐evolution has an important function in the evolution of species and it is clearly manifested in certain scenarios such as host–parasite and predator–prey interactions, symbiosis and mutualism.