GeomMotif: A Benchmark for Arbitrary Geometric Preservation in Protein Generation (opens in new tab)

Motif scaffolding in protein design involves generating complete protein structures while preserving the 3D geometry of designated structural fragments, analogous to image outpainting in computer vision. Current benchmarks focus on functional motifs, leaving general geometric preservation capabilities largely untested. We introduce GeomMotif, a systematic benchmark that evaluates arbitrary structural fragment preservation without requiring functional specificity. We construct 57 benchmark tas...