Categorizing prediction modes within low-pLDDT regions of AlphaFold2 structures.

ABSTRACT: AlphaFold2 protein structure predictions are widely available for structural biology uses. These predictions, especially for eukaryotic proteins, frequently contain extensive regions predicted below the pLDDT 70 level, the rule-of-thumb cutoff for high confidence. This work identifies major modes of behavior within low-pLDDT regions through a survey of human proteome predictions provided by the AlphaFold Protein Structure Database. The near-predictive mode resembles folded protein and can be a nearly accurate prediction. Barbed wire is extremely unproteinlike, being recognized by wide looping coils, an absence of packing contacts, and numerous signature validation outliers, and it likely represents a nonpredicted region. Pseudostructure presents an intermediate behavio

SUBMITTER: Williams CJ 

PROVIDER: S-EPMC12157579 | biostudies-literature | 2025 Jun

REPOSITORIES: biostudies-literature