Summary
Kinks in nanobody CDR3 loops are correctly predicted by generic protein structure prediction software (1). Nevertheless, kinks reduce the tendency of these methods to correctly model the assembled complex. This could be due to relative homogeneity among extended conformations but diversity among the kinked conformations.
Figures
Figures from (1)
1.
Eshak F, Goupil-Lamy A. Advancements in Nanobody Epitope Prediction: A Comparative Study of AlphaFold2Multimer vs AlphaFold3. Journal of Chemical Information and Modeling. 2025;65(4):1782–97. Available from: https://doi.org/10.1021/acs.jcim.4c01877