Downloading Beta Proteins From Scop Database

Question

[gladys12]

Hello,

I am new to bioinformatics. I would like to download and analyze the amino acid composition of all beta proteins in SCOP database. What is the best way to do this?

Your suggestions would be appreciated!!

Answer 1

[Hamish]

SCOP (Structural Classification of Proteins) is a classification of protein structures in PDB. Since it is a classification, the annotations on structure and sequences databases use references to SCOP to describe their proteins.

Depending on exactly what you are looking for you can use ASTRAL to retrieve sequences corresponding to SCOP domains or you can can query PDB to find structures matching SCOP terms (see the "Advanced Search" and select "SCOP Classification Browser").