NetTCR-struc, a structure driven approach for prediction of TCR-pMHC interactions.

ABSTRACT: Accurate modeling of T cell receptor (TCR)-peptide-major histocompatibility complex (pMHC) interactions is critical for understanding immune recognition. In this study, we present advances in structural modeling of TCR-pMHC class I complexes focusing on improving docking quality scoring and structural model selection using graph neural networks (GNN). We find that AlphaFold-Multimer's confidence score in certain cases correlates poorly with DockQ quality scores, leading to overestimation of model accuracy. Our proposed GNN solution achieves a 25% increase in Spearman's correlation between predicted quality and DockQ (from 0.681 to 0.855) and improves docking candidate ranking. Additionally, the GNN completely avoids selection of failed structures. Additionally, we assess the ability of our

SUBMITTER: Deleuran SN 

PROVIDER: S-EPMC12311634 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature