Protein sequence features from sequence inputs?
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4.7 years ago
Bioaln ▴ 350

Hello!

I am currently dealing with some sequence processing and I came to the following problem. I have a bunch of fasta sequences , representing my proteins. How do I find important structural features in such data? I realize this can be done almost exclusively with some database of annotated features, is there any of such kind?

So for example I want to know, how many there are alpha helices, beta strands and so on for each fasta sequence.

Thanks!

protein sequence features • 1.4k views
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4.7 years ago
cdsouthan ★ 1.8k

Use the InterPro engine as the most informative first pass. 2nd struc prediction not that useful, but gene3D inside InterPro will tell you structure matches with known 2nd struc

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Thanks for the suggestion!

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