Mechanisms of protein evolution
Sign Up to like & getrecommendations! Published in 2022 at "Protein Science"
DOI: 10.1002/pro.4362
Abstract: How do proteins evolve? How do changes in sequence mediate changes in protein structure, and in turn in function? This question has multiple angles, ranging from biochemistry and biophysics to evolutionary biology. This review provides… read more here.
Keywords: mechanisms protein; protein evolution; biochemistry; biology ... See more keywords
In vivo Protein Evolution, Next Generation Protein Engineering Strategy: from Random Approach to Target-specific Approach
Sign Up to like & getrecommendations! Published in 2019 at "Biotechnology and Bioprocess Engineering"
DOI: 10.1007/s12257-018-0394-2
Abstract: In vivo protein evolution is a protein engineering approach that is performed by both generating mutagenesis libraries and selecting desired mutants in a cell. Despite its clear advantages in some aspects, the approach has not… read more here.
Keywords: protein; target specific; vivo protein; protein evolution ... See more keywords
Protein evolution revisited
Sign Up to like & getrecommendations! Published in 2018 at "Systems Biology in Reproductive Medicine"
DOI: 10.1080/19396368.2018.1511764
Abstract: ABSTRACT Antifreeze proteins (AFPs) protect marine fishes from freezing in icy seawater. They evolved relatively recently, most likely in response to the formation of sea ice and Cenozoic glaciations that occurred less than 50 million… read more here.
Keywords: medicine; gene; protein evolution; evolution revisited ... See more keywords
Substitution Rates Predicted by Stability‐Constrained Models of Protein Evolution Are Not Consistent with Empirical Data
Sign Up to like & getrecommendations! Published in 2017 at "Molecular Biology and Evolution"
DOI: 10.1093/molbev/msx327
Abstract: &NA; Protein structures strongly influence molecular evolution. In particular, the evolutionary rate of a protein site depends on the number of its native contacts. Stability‐constrained models of protein evolution consider this influence of protein structure… read more here.
Keywords: evolution; protein evolution; stability; constrained models ... See more keywords
The Statistical Trends of Protein Evolution: A Lesson from AlphaFold Database
Sign Up to like & getrecommendations! Published in 2022 at "Molecular Biology and Evolution"
DOI: 10.1101/2022.04.07.487447
Abstract: The recent development of artificial intelligence provides us with new and powerful tools for studying the mysterious relationship between organism evolution and protein evolution. In this work, based on the AlphaFold Protein Structure Database (AlphaFold… read more here.
Keywords: constituent proteins; database; protein evolution; complexity ... See more keywords
Superfunneled Energy Landscape of Protein Evolution Unifies the Principles of Protein Evolution, Folding, and Design.
Sign Up to like & getrecommendations! Published in 2019 at "Physical review letters"
DOI: 10.1103/physrevlett.122.018103
Abstract: Evolution is essential for shaping the biological functions. Darwin proposed the selection as the driving force for evolution upon mutations. While mutations are clear, the quantification of the selection force is still challenging. In this… read more here.
Keywords: evolution; energy landscape; superfunneled energy; protein evolution ... See more keywords
Synonymous and Nonsynonymous Substitutions in Dictyostelium discoideum Ammonium Transporter amtA Are Necessary for Functional Complementation in Saccharomyces cerevisiae
Sign Up to like & getrecommendations! Published in 2023 at "Microbiology Spectrum"
DOI: 10.1128/spectrum.03847-22
Abstract: Functional diversification following gene duplication is one of the major driving forces of protein evolution. While the role of nonsynonymous substitutions in the functional diversification of proteins is well recognized, knowledge of the role of… read more here.
Keywords: ammonium; functional diversification; protein evolution; nonsynonymous substitutions ... See more keywords
Quantitative Analysis of Protein Evolution: The Phylogeny of Osteopontin
Sign Up to like & getrecommendations! Published in 2021 at "Frontiers in Genetics"
DOI: 10.3389/fgene.2021.700789
Abstract: The phylogenetic analysis of proteins conventionally relies on the evaluation of amino acid sequences or coding sequences. Individual amino acids have measurable features that allow the translation from strings of letters (amino acids or bases)… read more here.
Keywords: analysis protein; analysis; protein evolution; quantitative analysis ... See more keywords
In vivo client proteins of the chaperonin GroEL-GroES provide insight into the role of chaperones in protein evolution
Sign Up to like & getrecommendations! Published in 2023 at "Frontiers in Molecular Biosciences"
DOI: 10.3389/fmolb.2023.1091677
Abstract: Protein folding is often hampered by intermolecular protein aggregation, which can be prevented by a variety of chaperones in the cell. Bacterial chaperonin GroEL is a ring-shaped chaperone that forms complexes with its cochaperonin GroES,… read more here.
Keywords: client proteins; chaperonin groel; protein evolution; groel groes ... See more keywords