ZeroFold: Protein-RNA Binding Affinity Predictions from Pre-Structural Embeddings
The accurate prediction of protein-RNA binding affinity remains an unsolved problem in structural biology, limiting opportunities in understanding gene regulation and designing RNA-targeting therapeutics. A central obstacle is the structural flexibility of RNA, as, unlike proteins, RNA molecules exist as dynamic conformational ensembles. Thus, committing to a single predicted structure discards information relevant to binding. Here, we show that this obstacle can be addressed by extracting pre-structural embeddings, which are intermediate representations from a biomolecular foundation model captured before the structure decoding step. Pre-structural embeddings implicitly encode conformati...
| Authors | Josef Hanke, Sebastian Pujalte Ojeda, Shengyu Zhang et al. |
|---|---|
| Primary category | q-bio.BM |
| Published | 24 March 2026 |
| Last updated at source | 24 March 2026 |
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