SAAFEC-SEQ: an online application for calculating folding free energy changes in proteins caused by missense mutations

 

Computational Biophysics & Bioinformatics - Dr. Emil Alexov Group

SAAFEC-SEQ uses the PsePSSM algorithm to predict the stability changes upon a single mutation in protein. SAAFEC-SEQ uses gradient boosting decision tree repressor to encode physicochemical properties, sequence features and evolutionary information to compute the change in stability free energy resulting from single mutations. SAAFEC-SEQ outperforms all existing state-of-the-art sequence-based methods in both the Pearson correlation coefficient and root-mean-squared-error parameters for several independent datasets. SAAFEC-SEQ (available here) and use it locally.

 
SAAFEC-SEQ-SCHEMA
 

 
NOTE » We are using uniref100 database, which is a clustered version of nr database to make computations less intensive. Note that results may not be identical to that for nr database. However, you could download standalone version (available here) and use nr database on your own computer to achieve better accuracy.
Protein sequence/.fasta file and mutation information

Protein sequence


OR

Mutation detail



   

Protein sequence/.fasta file and mutations file information

Protein sequence


OR

Mutation list file


Upload a plain text file with one mutation per line, click here to view an example for reference