Property-driven Protein Inverse Folding With Multi-Objective Preference Alignment
Protein sequence design must balance designability, defined as the ability to recover a target backbone, with multiple, often competing, developability properties such as solubility, thermostability, and expression. Existing approaches address these properties through post hoc mutation, inference-time biasing, or retraining on property-specific subsets, yet they are target dependent and demand substantial domain expertise or careful hyperparameter tuning. In this paper, we introduce ProtAlign, a multi-objective preference alignment framework that fine-tunes pretrained inverse folding models to satisfy diverse developability objectives while preserving structural fidelity. ProtAlign employ...
| Authors | Xiaoyang Hou, Junqi Liu, Chence Shi et al. |
|---|---|
| Primary category | cs.LG |
| Published | 6 March 2026 |
| Last updated at source | 10 March 2026 |
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