Connected concepts · Student learning
Foldwords
An evolving ontology and student guide to AlphaFold.
34 terms, explained for students — from amino acids to confidence scores.
Understand AlphaFold, one concept at a time.
Example & analogy
A heatmap of how unsure the model is about each pair's placement.
Formal description
Shown as a heatmap. Low error (dark) blocks reveal confidently placed domains.
Why it matters
Helps you judge whether regions are placed confidently relative to each other.
Common misunderstanding
PAE describes relative placement uncertainty, not the local confidence reported by pLDDT.
Connected concepts
- Predicted aligned error is related to pTMCitation ↗
- Predicted aligned error is used to interpret Predicted structureCitation ↗
Sources & citations
Check your understanding
You trust two folded sections on their own, but wonder whether they sit correctly relative to each other. Which map helps you check?
See also: