Summary
The RMSD of AlphaFold2 models to ground truth structures is correlated with the RMSD between ground truth apo/holo conformations (1).
See also
- AlphaFold2 predicts the holo form of proteins in most cases
- AlphaFold2 and RosettaFold sometimes produce different conformations
- pLDDT and PAE in protein folding neural networks are correlated
1.
Saldaño T, Escobedo N, Marchetti J, Zea DJ, Mac Donagh J, Velez Rueda AJ, et al. Impact of protein conformational diversity on AlphaFold predictions. Bioinformatics. 2022;38(10):2742–8. Available from: https://doi.org/10.1093/bioinformatics/btac202