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bioRxiv · 10.64898/2026.06.16.732554

SAbDab2: The structural antibody database in the age of machine learning

Capel, H. L.·Vavourakis, O.·Williams, B. H.·Taylor, C. R.·Deane, C. M.
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Abstract

The Structural Antibody Database (SAbDab) is a publicly available repository of experimentally determined antibody structures, first released in 2013. Explicit support for single-domain antibodies was added in 2021, with SAbDab-nano. Recently, increasing interest in antibodies has led to a proliferation of novel antibody formats, while simultaneous advances in machine learning have increased demand for standardised, high-quality structure data. Here, we present SAbDab2, re-engineered for the machine-learning age. It introduces support for a variety of new formats, and makes it easy to retrieve and compare all known structures of a given antibody. In addition, SAbDab2 provides ready access to ML-grade structures of antibody and antibody-antigen-complexes, with standardised, versioned train/test splits. These will be updated every six months going forward, and are available at https://zenodo.org/records/20083995. SAbDab2 itself is updated weekly and is freely available at https://sabdab2.opig.stats.ox.ac.uk.

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Capel, H. L., Vavourakis, O., Williams, B. H., Taylor, C. R., Deane, C. M.. 2026-06-20. SAbDab2: The structural antibody database in the age of machine learning. https://doi.org/10.64898/2026.06.16.732554

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