Supported Applications

AlphaFold3

Description

predicts 3D molecular structures and their interactions. It generalizes the original "protein‑only" AlphaFold into a model for whole biomolecular complexes, including proteins, DNA, RNA, and ligands (small molecules).
Usage
To list all executables provided by AlphaFold3, run: $ sbgrid-list alphafold3
Usage Notes

AlphaFold version 3 has different parameters and databases and requires different procedures than AlphaFold version 2.

Please see our examples:

SBGrid AlphaFold3 Example
Installation
Use the following command to install this title with the CLI client: $ sbgrid-cli install alphafold3 Available operating systems: Linux 64
Primary Citation*

J. Abramson, J. Adler, J. Dunger, R. Evans, T. Green, A. Pritzel, O. Ronneberger, L. Willmore, A. J. Ballard, J. Bambrick, S. W. Bodenstein, D. A. Evans, C. C. Hung, M. O'Neill, D. Reiman, K. Tunyasuvunakool, Z. Wu, A. Žemgulytė, E. Arvaniti, C. Beattie, O. Bertolli, A. Bridgland, A. Cherepanov, M. Congreve, A. I. Cowen-Rivers, A. Cowie, M. Figurnov, F. B. Fuchs, H. Gladman, R. Jain, Y. A. Khan, C. M. R. Low, K. Perlin, A. Potapenko, P. Savy, S. Singh, A. Stecula, A. Thillaisundaram, C. Tong, S. Yakneen, E. D. Zhong, M. Zielinski, A. Žídek, Bapst V, P. Kohli, M. Jaderberg, D. Hassabis, and J. M. Jumper. 2024. Accurate structure prediction of biomolecular interactions with AlphaFold 3. Nature. 630(8016): 493-500.
- *Full citation information available through

Keywords

Machine Learning, Protein-Protein Interaction Prediction, Protein Structure Analysis
Default Versions

Linux 64: 3.0.5 (8.1 GB)
Other Versions
Developers

Augustin Zidek, John Jumper, Tom Ward, Saran Tunyasuvunakool, Demis Hassabis, Google DeepMind