I have a fasta file of yeast orfs (from the SGD database) and I need to find out (predict) secondary structure/classification for all of them (so ~6K queries and doing this by hand on numerous available websites is not an option).

Is CATH database a place that can give me this info? (so far I struggle to recover anything that can help me from the website but perhaps I am missing something), if not what's the best way/software to go about it? perhaps a piece of code in R or Python.

Surely, these predictions have been done before and there is a database somewhere? -- yeast is too much of an important organism, with a lot of information about its genome.