What does PASTA 2.0 do?

PASTA2 Predicts Amyloid STructural Aggregation with enhanced functionality and sequence based properties. It predicts the most aggregation-prone portions and the corresponding β-strand inter-molecular pairing for multiple input sequences. In addition, it predicts intrinsic protein disorder and secondary structure efficiently allowing analyses of complementary sequence properties. The PASTA energy threshold was recalibrated on a larger set of peptides and is given as a function of sensitivity and specificity. Finally, an option to perform intra-protein aggregation (i.e. protein-protein aggregation) is possible.

Large scale analysis: PASTA2 allows a large scale analysis on many proteins. However, if this grows very large it is wise to turn on the large-scale option which will remove graphics and increase efficiency.

Please cite
Ian Walsh, Flavio Seno, Silvio C.E. Tosatto and Antonio Trovato.
PASTA2: An improved server for protein aggregation prediction
Nucleic Acids Research, 2014 Jul;42(Web Server issue):W301-7.


PASTA 2.0 implements a statistical energy function in order to determine fibril formation. For a detailed description of the potential one should read the methods paper. Machine learning is used to predict the secondary structure and intrinsic disorder. Graphs were generated with the R package. In addition, the server is executed on a state-of-art-cluster where many sequences are processed at once using the Sun Grid Engine system.

Novel features