Ancestral Sequence Reconstruction Enhances Gene Mining Efforts for Industrial Ene Reductases by Expanding Enzyme Panels with Thermostable Catalysts

Thermoadaptation in an Ancestral Diterpene Cyclase by Altered Loop Stability

(2022) David A. Hueting et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Ancestral Sequence Reconstruction: From Chemical Paleogenetics to Maximum Likelihood Algorithms and Beyond

(2021) Avery G. A. Selberg et al.   JOURNAL OF MOLECULAR EVOLUTION

Engineering of Ancestors as a Tool to Elucidate Structure, Mechanism, and Specificity of Extant Terpene Cyclase

(2021) Karen Schriever et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A New Thermophilic Ene-Reductase from the Filamentous Anoxygenic Phototrophic Bacterium Chloroflexus aggregans

(2021) Marina Simona Robescu et al.   Microorganisms

Resurrection and characterization of ancestral CYP11A1 enzymes

(2021) Philip Hartz et al.   FEBS Journal

Catalytic mechanism of ancestral L-lysine oxidase assigned by sequence data mining

(2021) Sayaka Sugiura et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Ancestral sequence reconstruction produces thermally stable enzymes with mesophilic enzyme-like catalytic properties

(2020) Ryutaro Furukawa et al.   Scientific Reports

Evolutionary diverse Chlamydomonas reinhardtii Old Yellow Enzymes reveal distinctive catalytic properties and potential for whole-cell biotransformations

(2020) Stefanie Böhmer et al.   Algal Research-Biomass Biofuels and Bioproducts

FireProtASR: A Web Server for Fully Automated Ancestral Sequence Reconstruction

(2020) Milos Musil et al.   BRIEFINGS IN BIOINFORMATICS

Following the Evolutionary Track of a Highly Specific L-Arginine Oxidase by Reconstruction and Biochemical Analysis of Ancestral and Native Enzymes

(2019) Shogo Nakano et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Deracemization and Stereoinversion to Aromatic D-Amino Acid Derivatives with Ancestral L-Amino Acid Oxidase

(2019) Shogo Nakano et al.   ACS Catalysis

Discovery, Characterization, Engineering, and Applications of Ene-Reductases for Industrial Biocatalysis

(2018) Helen S. Toogood et al.   ACS Catalysis

Relationships between Substrate Promiscuity and Chiral Selectivity of Esterases from Phylogenetically and Environmentally Diverse Microorganisms

(2018) Cristina Coscolín et al.   Catalysts

Ancestral diterpene cyclases show increased thermostability and substrate acceptance

(2018) Natalie M. Hendrikse et al.   FEBS Journal

Biocatalytic access to nonracemic γ-oxo esters via stereoselective reduction using ene-reductases

(2017) Nikolaus G. Turrini et al.   GREEN CHEMISTRY

Reverse engineering: transaminase biocatalyst development using ancestral sequence reconstruction

(2017) Matthew Wilding et al.   GREEN CHEMISTRY

Database resources of the National Center for Biotechnology Information

(2017) et al.   NUCLEIC ACIDS RESEARCH

Mechanism and Catalytic Site Atlas (M-CSA): a database of enzyme reaction mechanisms and active sites

(2017) António J M Ribeiro et al.   NUCLEIC ACIDS RESEARCH

De novo active sites for resurrected Precambrian enzymes

(2017) Valeria A. Risso et al.   Nature Communications

Phylogenetic rooting using minimal ancestor deviation

(2017) Fernando Domingues Kümmel Tria et al.   Nature Ecology & Evolution

Exploring the past and the future of protein evolution with ancestral sequence reconstruction: the 'retro approach to protein engineering

(2016) Y. Gumulya et al.   BIOCHEMICAL JOURNAL

Ancestral protein reconstruction: techniques and applications

(2016) Rainer Merkl et al.   BIOLOGICAL CHEMISTRY

The thermostability and specificity of ancient proteins

(2016) Lucas C Wheeler et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

On the Potential Origins of the High Stability of Reconstructed Ancestral Proteins

(2016) Devin L. Trudeau et al.   MOLECULAR BIOLOGY AND EVOLUTION

Ancestral Reconstruction

(2016) Jeffrey B. Joy et al.   PLoS Computational Biology

DNA assembly and cloning in an overnight run with the BioXp™ 3200 system

(2015) Claudia H Alvarez   NATURE METHODS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Computationally designed libraries for rapid enzyme stabilization

(2014) H. J. Wijma et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Hyperstability and Substrate Promiscuity in Laboratory Resurrections of Precambrian β-Lactamases

(2013) Valeria A. Risso et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Structural and Catalytic Characterization of Pichia stipitis OYE 2.6, a Useful Biocatalyst for Asymmetric Alkene Reductions

(2012) Yuri A. Pompeu et al.   ADVANCED SYNTHESIS & CATALYSIS

Asymmetric bioreduction of activated alkenes to industrially relevant optically active compounds

(2012) Christoph K. Winkler et al.   JOURNAL OF BIOTECHNOLOGY

Stabilizing Proteins from Sequence Statistics: The Interplay of Conservation and Correlation in Triosephosphate Isomerase Stability

(2012) Brandon J. Sullivan et al.   JOURNAL OF MOLECULAR BIOLOGY

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

The Substrate Spectra of Pentaerythritol Tetranitrate Reductase, Morphinone Reductase,N-Ethylmaleimide Reductase and Estrogen-Binding Protein in the Asymmetric Bioreduction of Activated Alkenes

(2010) Nicole J. Mueller et al.   ADVANCED SYNTHESIS & CATALYSIS

Robustness of Ancestral Sequence Reconstruction to Phylogenetic Uncertainty

(2010) Victor Hanson-Smith et al.   MOLECULAR BIOLOGY AND EVOLUTION