Chasing molecular glue degraders: screening approaches

A Domostegui, L Nieto-Barrado… - Chemical Society …, 2022 - pubs.rsc.org
Protein–protein interactions (PPIs) govern all biological processes. Some small molecules
modulate PPIs through induced protein proximity. In particular, molecular glue degraders …

PROTAC'ing oncoproteins: targeted protein degradation for cancer therapy

JM Kelm, DS Pandey, E Malin, H Kansou, S Arora… - Molecular Cancer, 2023 - Springer
Molecularly targeted cancer therapies substantially improve patient outcomes, although the
durability of their effectiveness can be limited. Resistance to these therapies is often related …

Improved prediction of protein-protein interactions using AlphaFold2

P Bryant, G Pozzati, A Elofsson - Nature communications, 2022 - nature.com
Predicting the structure of interacting protein chains is a fundamental step towards
understanding protein function. Unfortunately, no computational method can produce …

Towards a structurally resolved human protein interaction network

DF Burke, P Bryant, I Barrio-Hernandez… - Nature Structural & …, 2023 - nature.com
Cellular functions are governed by molecular machines that assemble through protein-
protein interactions. Their atomic details are critical to studying their molecular mechanisms …

Deciphering interaction fingerprints from protein molecular surfaces using geometric deep learning

P Gainza, F Sverrisson, F Monti, E Rodola, D Boscaini… - Nature …, 2020 - nature.com
Predicting interactions between proteins and other biomolecules solely based on structure
remains a challenge in biology. A high-level representation of protein structure, the …

[HTML][HTML] The immune landscape of cancer

V Thorsson, DL Gibbs, SD Brown, D Wolf, DS Bortone… - Immunity, 2018 - cell.com
We performed an extensive immunogenomic analysis of more than 10,000 tumors
comprising 33 diverse cancer types by utilizing data compiled by TCGA. Across cancer …

DeepProSite: structure-aware protein binding site prediction using ESMFold and pretrained language model

Y Fang, Y Jiang, L Wei, Q Ma, Z Ren, Q Yuan… - …, 2023 - academic.oup.com
Motivation Identifying the functional sites of a protein, such as the binding sites of proteins,
peptides, or other biological components, is crucial for understanding related biological …

PeSTo: parameter-free geometric deep learning for accurate prediction of protein binding interfaces

LF Krapp, LA Abriata, F Cortés Rodriguez… - Nature …, 2023 - nature.com
Proteins are essential molecular building blocks of life, responsible for most biological
functions as a result of their specific molecular interactions. However, predicting their …

Network-based prediction of protein interactions

IA Kovács, K Luck, K Spirohn, Y Wang, C Pollis… - Nature …, 2019 - nature.com
Despite exceptional experimental efforts to map out the human interactome, the continued
data incompleteness limits our ability to understand the molecular roots of human disease …

Small molecules, big targets: drug discovery faces the protein–protein interaction challenge

DE Scott, AR Bayly, C Abell, J Skidmore - Nature Reviews Drug …, 2016 - nature.com
Protein–protein interactions (PPIs) are of pivotal importance in the regulation of biological
systems and are consequently implicated in the development of disease states. Recent work …