This workflow implements a computational protein binder design pipeline targeting RBX1 using the HalluDesign framework, which orchestrates structure prediction and sequence optimization tools. The pipeline uses Protenix as the structural prediction backend and ProteinMPNN for sequence redesign, enabling generation of amino acid sequences compatible with predicted protein structures.

The system starts from a seed complex structure where the RBX1 target chain is fixed while the binder chain is optimized. Multiple design iterations are performed to refine the structure and generate diverse sequences using temperature-controlled sampling. The resulting complexes are evaluated using structural confidence metrics such as predicted structural accuracy and interface quality.

This workflow produces a set of candidate binder sequences along with predicted structures and evaluation scores, which can be used for downstream computational validation and experimental prioritization.