category
bioRxiv
date
Mar 20, 2026
slug
status
Published
summary
创新性提出三元图学习框架,通过构建残基节点图与接触节点图分离单体与界面表征,并设计界面上下文聚合模块实现多尺度结构特征融合,显著提升蛋白质复合物模型质量评估性能。
tags
蛋白质组学
type
Post

📄 原文题目

TriGraphQA: a triple graph learning framework for model quality assessment of protein complexes

🔗 原文链接

💡 AI 核心解读

创新性提出三元图学习框架,通过构建残基节点图与接触节点图分离单体与界面表征,并设计界面上下文聚合模块实现多尺度结构特征融合,显著提升蛋白质复合物模型质量评估性能。

📝 英文原版摘要

Accurate quality assessment of predicted protein-protein complex structures remains a major challenge. Existing graph-based quality assessment methods often treat the entire complex as a homogeneous graph, which obscures the physical distinction between intra-chain folding stability and inter-chain binding specificity. In this study, we introduce TriGraphQA, a novel triple graph learning framework designed for model quality assessment of protein complexes. TriGraphQA explicitly decouples monomeric and interfacial representations by constructing three geometric views: two residue-node graphs capturing the local folding environments of individual chains, and a dedicated contact-node graph representing the binding interface. Crucially, we propose an interface context aggregation module to project context-rich embeddings from the monomers onto the interface, effectively fusing multi-scale structural features. We conducted comprehensive tests on several challenging benchmark datasets, including Dimer50, DBM55-AF2, and HAF2. The results show that TriGraphQA significantly outperforms state-of-the-art single-model methods. TriGraphQA consistently achieves the highest global scoring correlations and lower top-ranking losses. Consequently, TriGraphQA provides a powerful evaluation tool for protein-protein docking, facilitating the reliable identification of near-native assemblies in large-scale structural modeling and molecular recognition studies.
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