AlphaFold/Index

Here are pages in Proteopedia that relate to AlphaFold.

Introductions to AlphaFold

• AlphaFold. An introduction and overview.
• Theoretical models describes the breakthrough in structure prediction made by AlphaFold in CASP 14 (2020) and the continued pre-eminence of AlphaFold in CASP 15 [2022].

How To Make Predictions

• How to predict structures with AlphaFold when the AlphaFold Database does not already have what you want.
• Joining AlphaFold predictions for halves of a molecule, when the sequence is too long for AlphaFold to handle.
• How to renumber PDB files in order to correct sequence numbers.

Interpreting Predictions

• AlphaFold pLDDT and expected distance error
• Calculating GDT TS the Global Distance Test Total Score, one of the metrics used for judging accuracy of predictions in the CASP competitions.

Examples of Predictions

• AlphaFold2 examples from CASP 14. A detailed analysis of several AlphaFold predictions compared with empirically-determined structures.

See Also

• RoseTTAFold
• wwPDB, the WorldWide Protein DataBank archive of empirical models.
• ModelArchive, a database of theoretical (non-empirical) models.

Proteopedia Page Contributors and Editors (what is this?)

Eric Martz