ArticleBriefings in bioinformatics2025
$\mathcal{S}$ able: bridging the gap in protein structure understanding with an empowering and versatile pre-training paradigm.
Article in Briefings in bioinformatics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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Who cites it
3 citing papers in PubMed.
- BridgeNet: a high-efficiency framework integrating sequence and structure for protein and enzyme function prediction.Briefings in bioinformatics · 2025Article
- Harnessing pre-trained models for accurate prediction of protein-ligand binding affinity.BMC bioinformatics · 2025Article
- EnzyDiff: Sequence-based classification of mutation-induced enzyme activity direction using latent diffusion denoising.Science progressArticle
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Authors and funding
7 authors.
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Abstract
Protein pre-training has emerged as a transformative approach for solving diverse biological tasks. While many contemporary methods focus on sequence-based language models, recent findings highlight that protein sequences alone are insufficient to capture the extensive information inherent in protein structures. Recognizing the crucial role of protein structure in defining function and interactions, we introduce $\mathcal{S}$able, a versatile pre-training model designed to comprehensively understand protein structures. $\mathcal{S}$able incorporates a novel structural encoding mechanism that enhances inter-atomic information exchange and spatial awareness, combined with robust pre-training strategies and lightweight decoders optimized for specific downstream tasks. This approach enables $\mathcal{S}$able to consistently outperform existing methods in tasks such as generation, classification, and regression, demonstrating its superior capability in protein structure representation. The code and models can be accessed via GitHub repository at https://github.com/baaihealth/Sable.
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