Obtain secondary structure of protein residues

Question

[Nathaniel]

I have a list of cancer-related mutations from many different proteins and I would like to see which ones fall within particular secondary structures and which ones fall outside secondary structures.

Does anybody know which database is the appropriate one to check?

Thanks!

[Nicola Casiraghi]

Hi, I don't know how to perform your analysis automatically for wide sets of proteins/mutations. However, I can only suggest you to manually inspect secondary structure provided by PDBsum (use PDB id as input) and check where your mutation of interest is located.

[Nathaniel]

I solved it by extracting the secondary structure from the corresponding DSSP file for each PDB, and then do the analysis.

Thanks for the help!