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query regarding N and O glycosylation prediction. - (Jul/19/2013 )

Hello

I used the program Ensemblgly for predicting the N and O glycosylation sites of my plant proteins.

My plant proteins are predicted to be non-secretory proteins by TargetP (They are predicted to have no signal peptides, mTP or cTP). And I read that secretory proteins have exclusively N-glycosylation. Whereas secretory and nucleo/cytoplasmic proteins have O -glycosylation.

My proteins return both N and O-glycosylation by the program. So I was confused with how to interpret my results for the N-glycosyation.

I was wondering how to correlate the non-secretory status of the proteins with N-glycosylation. Any help in this regard would be highly appreciated.

Thanks for your time.

Bioscientist

-Bioscientist-

I think (but it would pay to check for yourself) that not all N-glycosylated proteins are secreted (perhaps only those that have solely N-glyc). If, as you say, O-glycosylated proteins are never secreted, then you have answered your question yourself

-bob1-

Hello

I used the program Ensemblgly for predicting the N and O glycosylation sites of my plant proteins.

My plant proteins are predicted to be non-secretory proteins by TargetP (They are predicted to have no signal peptides, mTP or cTP). And I read that secretory proteins have exclusively N-glycosylation. Whereas secretory and nucleo/cytoplasmic proteins have O -glycosylation.

My proteins return both N and O-glycosylation by the program. So I was confused with how to interpret my results for the N-glycosyation.

I was wondering how to correlate the non-secretory status of the proteins with N-glycosylation. Any help in this regard would be highly appreciated.

Thanks for your time.

Bioscientist

Hi,

 

If you are using MS/MS data..then there is a tool SimGlycan which upon data loading can identify N-Glycosylation sites (using NXT rule). If you are working with a particular Protein ID (for eg SWISS-Prot ID) then it will directly display N and O glycosylation sites. Here is the link to the tool: http://premierbiosoft.com/glycan/index.html.

 

Cheers!

Hank

-hankm394-