Aggregation detection software tools | Protein physicochemical properties data analysis

Predicts the aggregation propensities of several disease-related mutations in the Alzheimers b-peptide. TANGO is based on simple physico-chemical principles of secondary structure formation extended by the assumption that the core regions of an aggregate are fully buried. This method offers the possibility to screen large databases for potentially disease-related aggregation motifs as well as to optimize recombinant protein yields by rationally out-designing protein aggregation.

A web app which uses a position-specific scoring matrix to determine amyloid-forming sequences. Waltz allows users to identify and better distinguish between amyloid sequences and amorphous beta-sheet aggregates and allowed us to identify amyloid-forming regions in functional amyloids.

Predicts potential split sites in proteins such that two halves of a splitted protein being attached to a couple of other proteins can reassemble into a full protein upon ligand or light stimulation. SPELL only considers surface-exposed loops with low sequence conservation. This web application aims to maximize the number of predicted true split sites while keeping the number of false-positive prediction at the lowest.

Allows searching candidates (“candies”) capable of forming stacks of β-arches. ArchCandy can explore the human proteome (over 21 000) and uses positive (composed of 23 proteins and peptides known) and negative data sets. This tool predicts amyloid formation in solution and doesn’t take into consideration the interactions with other surfaces. It identifies about 85% and 94% of proteins in the extended positive and negative data sets.

A server for prediction of aggregation propensity in protein structures and rational design of protein solubility. In dynamic mode, A3D takes into account the flexibility of natural and designed polypeptides.