Protein–protein interaction prediction methods: from docking-based to AI-based approaches

Y Tsuchiya, Y Yamamori, K Tomii - Biophysical Reviews, 2022 - Springer
Abstract Protein–protein interactions (PPIs), such as protein–protein inhibitor, antibody–
antigen complex, and supercomplexes play diverse and important roles in cells. Recent …

Advancing structural biology through breakthroughs in AI

L Aithani, E Alcaide, S Bartunov, CDO Cooper… - Current Opinion in …, 2023 - Elsevier
The past century has witnessed an exponential increase in our atomic-level understanding
of molecular and cellular mechanisms from a structural perspective, with multiple landmark …

Efficient and accurate prediction of protein structure using RoseTTAFold2

M Baek, I Anishchenko, IR Humphreys, Q Cong… - BioRxiv, 2023 - biorxiv.org
AlphaFold2 and RoseTTAFold predict protein structures with very high accuracy despite
substantial architecture differences. We sought to develop an improved method combining …

SymProFold: Structural prediction of symmetrical biological assemblies

C Buhlheller, T Sagmeister, C Grininger… - Nature …, 2024 - nature.com
Symmetry in nature often emerges from self-assembly processes and serves a wide range of
functions. Cell surface layers (S-layers) form symmetrical lattices on many bacterial and …

How the technologies behind self‐driving cars, social networks, ChatGPT, and DALL‐E2 are changing structural biology

M Bochtler - BioEssays, 2025 - Wiley Online Library
The performance of deep Neural Networks (NNs) in the text (ChatGPT) and image (DALL‐
E2) domains has attracted worldwide attention. Convolutional NNs (CNNs), Large …

[HTML][HTML] Rapid and accurate prediction of protein homo-oligomer symmetry with Seq2Symm

M Kshirsagar, A Meller, I Humphreys… - Research …, 2024 - ncbi.nlm.nih.gov
The majority of proteins must form higher-order assemblies to perform their biological
functions. Despite the importance of protein quaternary structure, there are few machine …

[CYTOWANIE][C] Prediction of protein complex structure: methods and progress

H Huang, WU Tong, W Wenda, LI Jiashan… - Synthetic Biology Journal, 2023

[CYTOWANIE][C] 蛋白质复合物结构预测: 方法与进展

黄鹤, 吴桐, 王闻达, **佳珊, 孙黛雯, 叶启威, 龚新奇 - 合成生物学, 2023