Models generated by AlphaFold3 used for CASP16 predictions

Elofsson and AF3-server predictions for CASP16

Organisation

The file Targets.MD contains comments about predictions and choices made for each target

Code

in bin/ all scripts used during the predictions are made available

Targets

All submitted targets for Elofsson (#241) and AF3-server (#304) can be found in targets/ (gzipped)

Scores

The file scores.csv contains all the pTM/ipTM/Ranking_confidence values for all models generated. In most cases the highest ranking_confidence score relates to the Elofsson prediction. and the fold_XYYYY_summary_confidences_0 related to the prediction submitted as the AF3-server. However, for large targets and round 0 models this is not always the case. Note also that for round 1 models often round 0 models are submitted. Due to space limitations

Please also examine the git repository for this project

 https://github.com/ElofssonLab/casp16/

Paper available here

https://doi.org/10.1101/2025.04.10.648174