The crucial role of methodology development in directed evolution of selective enzymes

G Qu, A Li, CG Acevedo‐Rocha, Z Sun… - Angewandte Chemie …, 2020 - Wiley Online Library
Directed evolution of stereo‐, regio‐, and chemoselective enzymes constitutes a unique way
to generate biocatalysts for synthetically interesting transformations in organic chemistry and …

Massively parallel assays and quantitative sequence–function relationships

JB Kinney, DM McCandlish - Annual review of genomics and …, 2019 - annualreviews.org
Over the last decade, a rich variety of massively parallel assays have revolutionized our
understanding of how biological sequences encode quantitative molecular phenotypes …

Rapid biosensor development using plant hormone receptors as reprogrammable scaffolds

J Beltrán, PJ Steiner, M Bedewitz, S Wei… - Nature …, 2022 - nature.com
A general method to generate biosensors for user-defined molecules could provide
detection tools for a wide range of biological applications. Here, we describe an approach …

An orthogonalized PYR1-based CID module with reprogrammable ligand-binding specificity

SY Park, J Qiu, S Wei, FC Peterson, J Beltrán… - Nature Chemical …, 2024 - nature.com
Plants sense abscisic acid (ABA) using chemical-induced dimerization (CID) modules,
including the receptor PYR1 and HAB1, a phosphatase inhibited by ligand-activated PYR1 …

Mutational profiling of SARS-CoV-2 papain-like protease reveals requirements for function, structure, and drug escape

X Wu, M Go, JV Nguyen, NW Kuchel, BGC Lu… - Nature …, 2024 - nature.com
Papain-like protease (PLpro) is an attractive drug target for SARS-CoV-2 because it is
essential for viral replication, cleaving viral poly-proteins pp1a and pp1ab, and has de …

The energetic and allosteric landscape for KRAS inhibition

C Weng, AJ Faure, A Escobedo, B Lehner - Nature, 2024 - nature.com
Thousands of proteins have been validated genetically as therapeutic targets for human
diseases. However, very few have been successfully targeted, and many are considered …

Structural characterization of a soil viral auxiliary metabolic gene product–a functional chitosanase

R Wu, CA Smith, GW Buchko, IK Blaby… - Nature …, 2022 - nature.com
Metagenomics is unearthing the previously hidden world of soil viruses. Many soil viral
sequences in metagenomes contain putative auxiliary metabolic genes (AMGs) that are not …

High-throughput T cell receptor engineering by functional screening identifies candidates with enhanced potency and specificity

R Vazquez-Lombardi, JS Jung, FS Schlatter, A Mei… - Immunity, 2022 - cell.com
A major challenge in adoptive T cell immunotherapy is the discovery of natural T cell
receptors (TCRs) with high activity and specificity to tumor antigens. Engineering synthetic …

Determining protein structures using deep mutagenesis

JM Schmiedel, B Lehner - Nature genetics, 2019 - nature.com
Determining the three-dimensional structures of macromolecules is a major goal of
biological research, because of the close relationship between structure and function; …

A statistical framework for analyzing deep mutational scanning data

AF Rubin, H Gelman, N Lucas, SM Bajjalieh… - Genome biology, 2017 - Springer
Deep mutational scanning is a widely used method for multiplex measurement of functional
consequences of protein variants. We developed a new deep mutational scanning statistical …