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pFindStudio / pLink2

pLink is a software dedicated for the analysis of chemically cross-linked proteins or protein complexes using mass spectrometry.
http://pfind.ict.ac.cn/software/pLink/index.html
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Multiple Enzyme Search #23

Closed xLinkKnight closed 6 years ago

xLinkKnight commented 6 years ago

Is it possible to implement a way to search using two digestion enzymes with different cleavage site specificities? Currently we employ a combination of trypsin with other proteases because trypsin along will not yield suitable peptides for analysis. We have tried to alter the enzyme file to include an entry that combines the two cleavage sites, however this is not exactly correct because the enzymes differ in what adjacent resides prevent cleavage. The ability to search using a theoretical digest with two enzymes would greatly help our efforts.

01joy commented 6 years ago

Hi @xLinkKnight ,

pLink2 support multiple enzymes search, you can add your own enzyme in pConfig->Enzymes. Combine the cleavage sites of multiple enzymes into one enzyme, you can take the Glu-C.Trypsin as an example, which is the combination of enzyme Glu-C and Trypsin.

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