Inhibitors of bacterial immune systems: discovery, mechanisms and applications

D Mayo-Muñoz, R Pinilla-Redondo… - Nature Reviews …, 2024 - nature.com
To contend with the diversity and ubiquity of bacteriophages and other mobile genetic
elements, bacteria have developed an arsenal of immune defence mechanisms. Bacterial …

[HTML][HTML] Affinity maturation of antibody fragments: A review encompassing the development from random approaches to computational rational optimization

J Li, G Kang, J Wang, H Yuan, Y Wu, S Meng… - International journal of …, 2023 - Elsevier
Routinely screened antibody fragments usually require further in vitro maturation to achieve
the desired biophysical properties. Blind in vitro strategies can produce improved ligands by …

AlphaFold-Multimer predicts cross-kingdom interactions at the plant-pathogen interface

F Homma, J Huang, RAL van der Hoorn - Nature Communications, 2023 - nature.com
Adapted plant pathogens from various microbial kingdoms produce hundreds of unrelated
small secreted proteins (SSPs) with elusive roles. Here, we used AlphaFold-Multimer (AFM) …

Updated protein domain annotation of the PARP protein family sheds new light on biological function

MJ Suskiewicz, D Munnur, Ø Strømland… - Nucleic Acids …, 2023 - academic.oup.com
AlphaFold2 and related computational tools have greatly aided studies of structural biology
through their ability to accurately predict protein structures. In the present work, we explored …

Massively parallel measurement of protein–protein interactions by sequencing using MP3-seq

A Baryshev, A La Fleur, B Groves, C Michel… - Nature chemical …, 2024 - nature.com
Protein–protein interactions (PPIs) regulate many cellular processes and engineered PPIs
have cell and gene therapy applications. Here, we introduce massively parallel PPI …

From interaction networks to interfaces, scanning intrinsically disordered regions using AlphaFold2

H Bret, J Gao, DJ Zea, J Andreani, R Guerois - Nature Communications, 2024 - nature.com
The revolution brought about by AlphaFold2 opens promising perspectives to unravel the
complexity of protein-protein interaction networks. The analysis of interaction networks …

Molecular basis of TASL recruitment by the peptide/histidine transporter 1, PHT1

TF Custódio, M Killer, D Yu, V Puente… - Nature …, 2023 - nature.com
PHT1 is a histidine/oligopeptide transporter with an essential role in Toll-like receptor innate
immune responses. It can act as a receptor by recruiting the adaptor protein TASL which …

A perspective on the prospective use of AI in protein structure prediction

R Versini, S Sritharan, B Aykac Fas… - Journal of Chemical …, 2023 - ACS Publications
AlphaFold2 (AF2) and RoseTTaFold (RF) have revolutionized structural biology, serving as
highly reliable and effective methods for predicting protein structures. This article explores …

AlphaFold two years on: Validation and impact

O Kovalevskiy, J Mateos-Garcia… - Proceedings of the …, 2024 - pnas.org
Two years on from the initial release of AlphaFold, we have seen its widespread adoption as
a structure prediction tool. Here, we discuss some of the latest work based on AlphaFold …

Structural biology: A golden era

O Carugo, K Djinović-Carugo - PLoS biology, 2023 - journals.plos.org
Structural biology: A golden era | PLOS Biology Skip to main content Advertisement PLOS
Biology Browse Current Issue Journal Archive Collections Find and Read Articles Publish …