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Obtain secondary structure of protein residues

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!

snp
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updated by Ram Ram • written by Nathaniel • Nathaniel

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.

• 1 views • link
updated by Ram Ram • written by Nicola Casiraghi Nicola Casiraghi

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!

• 0 views • link
updated by Ram Ram • written by Nathaniel • Nathaniel

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