ReviewCurrent opinion in chemical biology2009
Enzyme (re)design: lessons from natural evolution and computation.
Review in Current opinion in chemical biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
51 citing papers in PubMed.
- Topological metrics as evolutionary and dynamical descriptors of conformational landscapes within protein families.PLoS computational biology · 2026Article
- Dynamic Allostery: Evolution's Double-Edged Sword in Protein Function and Disease.Journal of molecular biology · 2025Review
- Independent evolution of oleate hydratase clades in Bacillales reflects molecular convergence.Frontiers in molecular biosciences · 2024Article
- Deciphering the evolution of flavin-dependent monooxygenase stereoselectivity using ancestral sequence reconstruction.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Resurrecting Enzymes by Ancestral Sequence Reconstruction.Methods in molecular biology (Clifton, N.J.) · 2022Article
- The Birth of Genomic Enzymology: Discovery of the Mechanistically Diverse Enolase Superfamily.Biochemistry · 2021Article
- Hinge-shift mechanism as a protein design principle for the evolution of β-lactamases from substrate promiscuity to specificity.Nature communications · 2021Article
- Ancestral sequence reconstruction - An underused approach to understand the evolution of gene function in plants?Computational and structural biotechnology journal · 2021Review
- Resurrection of ancestral effector caspases identifies novel networks for evolution of substrate specificity.The Biochemical journal · 2019Review
- Protein Flexibility and Stiffness Enable Efficient Enzymatic Catalysis.Journal of the American Chemical Society · 2019Article
- Evolving artificial metalloenzymes via random mutagenesis.Nature chemistry · 2018Article
- Evolution of enzymes with new specificity by high-throughput screening using DmpR-based genetic circuits and multiple flow cytometry rounds.Scientific reports · 2018Article
- Rewriting the Metabolic Blueprint: Advances in Pathway Diversification in Microorganisms.Frontiers in microbiology · 2018Review
- Evolution of protein specificity: insights from ancestral protein reconstruction.Current opinion in structural biology · 2017Review
- Reconstructing Ancient Proteins to Understand the Causes of Structure and Function.Annual review of biophysics · 2017Review
- Computational tools for the evaluation of laboratory-engineered biocatalysts.Chemical communications (Cambridge, England) · 2016Review
- Distributions of experimental protein structures on coarse-grained free energy landscapes.The Journal of chemical physics · 2015Article
- An assessment of catalytic residue 3D ensembles for the prediction of enzyme function.BMC bioinformatics · 2015Article
- Biological messiness vs. biological genius: Mechanistic aspects and roles of protein promiscuity.The Journal of steroid biochemistry and molecular biology · 2015Review
- Molecular dynamics simulation and conformational analysis of some catalytically active peptides.Journal of molecular modeling · 2015Article
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Authors and funding
2 authors.
Funding
Abstract
The (re)design of enzymes to catalyze 'new' reactions is a topic of considerable practical and intellectual interest. Directed evolution (random mutagenesis followed by screening/selection) has been used widely to identify novel biocatalysts. However, 'rational' approaches using either natural divergent evolution or computational predictions based on chemical principles have been less successful. This review summarizes recent progress in evolution-based and computation-based (re)design.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.