Question: Retrieving annotation of protein type (globular/transmembrane etc.)
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gravatar for jergosh
4.8 years ago by
jergosh50
United Kingdom
jergosh50 wrote:

I would like to retrieve protein type annotation (globular/membrane/fibrous/unstructured) for a large number of entries.  I found that SCOP2 has this information but only for some proteins (and many proteins have not yet been added to SCOP2). Is there another resource that has that has this kind of annotation? Since my analysis covers thousands of proteins, a download option or API is probably a must. 

At a bare minimum I would like to split my data between transmembrane and the rest but and I noticed that transmembrane helices are annotated in Uniprot but I'm not sure which threshold to use for deciding a protein is transmembrane (e. g. is one TM helix of any length enough).

ADD COMMENTlink modified 4.8 years ago by Biostar ♦♦ 20 • written 4.8 years ago by jergosh50
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