Generation of Position Specific Scoring Matrix (PSSM)

This tool has been developed to generate Position Specific Scoring Matrix (PSSM) of a protein or peptide sequences, where users are allowed to paste or upload file with multiple protein/peptide sequences [fasta format or single line sequences] similar to the Example sequence. The user can also provide the PDB or UniProt IDs in the mentioned format.

This module run PSI-BLAST in the backend with following parameters:
• Number of iteration = 3
• E-value = 1e-3
• Database = Swiss-Prot, User can download the database we used in the backend by clicking here.

If user want to calculate the PSSM using other parameters, kindly use standalone version of Pfeature, available at this here. For more information see HELP page.

Paste peptide sequence(s) in single line format or FASTA format:

OR Submit sequence file:

OR PDB IDs:

OR UniProt IDs: