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Flow-based protein structure tokenizer, a diffusion autoencoder replacing SE(3)-invariant components with global coordinates and standard attention.

Protein structure tokenizer that maps 3D backbones to discrete tokens with an SE(3)-equivariant encoder preserving orientation and chirality.

Protein structure tokenizer that encodes 3D backbones as discrete VQ-VAE tokens, fixing the codebook under-utilization that caps their vocabulary.