This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
AlphaFold/Index
From Proteopedia
(Difference between revisions)
(→How To Make Predictions) |
|||
| Line 17: | Line 17: | ||
==Examples of Predictions== | ==Examples of Predictions== | ||
*[[AlphaFold2 examples from CASP 14]]. A detailed analysis of several AlphaFold predictions compared with [[Empirical models|empirically-determined structures]]. | *[[AlphaFold2 examples from CASP 14]]. A detailed analysis of several AlphaFold predictions compared with [[Empirical models|empirically-determined structures]]. | ||
| + | |||
| + | ==See Also== | ||
| + | *[[RoseTTAFold]] | ||
Current revision
Here are pages in Proteopedia that relate to AlphaFold.
Contents |
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.
