Prediction Of Sdp

Question

[Elisa]

Hi all

I've made a prediction of amino acid residues that determine differences in functional specificity (the so-called SDP) with different tools. How do you explain identification of SDP inside transembrane segment?

thanks in advance

[Michael Schubert]

Is it just me or does this question not really make sense? If your question is how SDPs are determined you should provide with the tools you used to make the prediction. Please clarify, then I'm sure someone will be able to answer :)

Answer 1

[Michael]

Just to add an answer to an old question:

Possibly a tool like SDPpred was used. Detecting residues that contribute significantly to functional classification in a conserved domain should be somewhat expected. E.g. some changes in a transmembrane segmentcould lead to a change in topology. As an example, there are two main types of transmembrane proteins, if transmembrane proteins are used as input and are annotated for this kind of analysis, the grouping into different classes would most likely be reflected in the annotation data given to the predictor, and the residues in the transmembrane segment contribute significantly to classification.