compbio-logo

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

Professor Emil Alexov Group

compbio-logo

About SAAFEC-SEQ

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(available here). SAAFEC-SEQ (available here) and use it locally.

 
SAAFEC-SEQ-SCHEMA
 
Please see the publication for greater details and cite to acknowledge the use of SAAFEC-SEQ in your work:

Li, G.; Panday, S.K.; Alexov, E. SAAFEC-SEQ: A Sequence-Based Method for Predicting the Effect of Single Point Mutations on Protein Thermodynamic Stability. Int. J. Mol. Sci. 2021, 22, 606. https://doi.org/10.3390/ijms22020606


 
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


   

 

 
Copyright © Computational Biophysics and Bioinformatics - Emil Alexov Group.